-- dump date 20140619_054146 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1042878000001 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 1042878000002 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1042878000003 DNA-binding site [nucleotide binding]; DNA binding site 1042878000004 RNA-binding motif; other site 1042878000005 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1042878000006 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1042878000007 P-loop; other site 1042878000008 Magnesium ion binding site [ion binding]; other site 1042878000009 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1042878000010 ParB-like nuclease domain; Region: ParBc; pfam02195 1042878000011 Phage integrase protein; Region: DUF3701; pfam12482 1042878000012 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878000013 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878000014 DNA binding residues [nucleotide binding] 1042878000015 dimerization interface [polypeptide binding]; other site 1042878000016 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 1042878000017 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042878000018 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042878000019 ligand binding site [chemical binding]; other site 1042878000020 flexible hinge region; other site 1042878000021 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1042878000022 non-specific DNA interactions [nucleotide binding]; other site 1042878000023 DNA binding site [nucleotide binding] 1042878000024 sequence specific DNA binding site [nucleotide binding]; other site 1042878000025 putative cAMP binding site [chemical binding]; other site 1042878000026 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 1042878000027 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1042878000028 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1042878000029 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1042878000030 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1042878000031 Right handed beta helix region; Region: Beta_helix; pfam13229 1042878000032 tyrosine kinase; Provisional; Region: PRK11519 1042878000033 Chain length determinant protein; Region: Wzz; pfam02706 1042878000034 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1042878000035 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1042878000036 Nucleotide binding site [chemical binding]; other site 1042878000037 P loop; other site 1042878000038 DTAP/Switch II; other site 1042878000039 Switch I; other site 1042878000040 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1042878000041 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1042878000042 active site 1042878000043 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1042878000044 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 1042878000045 SLBB domain; Region: SLBB; pfam10531 1042878000046 SLBB domain; Region: SLBB; pfam10531 1042878000047 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1042878000048 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1042878000049 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1042878000050 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 1042878000051 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042878000052 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 1042878000053 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 1042878000054 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042878000055 putative ADP-binding pocket [chemical binding]; other site 1042878000056 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1042878000057 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1042878000058 active site 1042878000059 dimer interface [polypeptide binding]; other site 1042878000060 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1042878000061 Ligand Binding Site [chemical binding]; other site 1042878000062 Molecular Tunnel; other site 1042878000063 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 1042878000064 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 1042878000065 NAD binding site [chemical binding]; other site 1042878000066 substrate binding site [chemical binding]; other site 1042878000067 homodimer interface [polypeptide binding]; other site 1042878000068 active site 1042878000069 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 1042878000070 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1042878000071 NAD binding site [chemical binding]; other site 1042878000072 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1042878000073 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1042878000074 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 1042878000075 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042878000076 putative ADP-binding pocket [chemical binding]; other site 1042878000077 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042878000078 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1042878000079 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1042878000080 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1042878000081 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1042878000082 inhibitor-cofactor binding pocket; inhibition site 1042878000083 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878000084 catalytic residue [active] 1042878000085 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1042878000086 active site 1042878000087 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1042878000088 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1042878000089 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1042878000090 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1042878000091 NAD(P) binding site [chemical binding]; other site 1042878000092 homodimer interface [polypeptide binding]; other site 1042878000093 substrate binding site [chemical binding]; other site 1042878000094 active site 1042878000095 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1042878000096 active site 1042878000097 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878000098 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878000099 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878000100 DNA binding residues [nucleotide binding] 1042878000101 dimerization interface [polypeptide binding]; other site 1042878000102 cyanate hydratase; Validated; Region: PRK02866 1042878000103 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 1042878000104 oligomer interface [polypeptide binding]; other site 1042878000105 active site 1042878000106 putative cyanate transporter; Provisional; Region: cynX; PRK09705 1042878000107 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878000108 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 1042878000109 nucleoside/Zn binding site; other site 1042878000110 dimer interface [polypeptide binding]; other site 1042878000111 catalytic motif [active] 1042878000112 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878000113 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878000114 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878000115 dimerization interface [polypeptide binding]; other site 1042878000116 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042878000117 active site 1042878000118 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 1042878000119 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 1042878000120 substrate binding site [chemical binding]; other site 1042878000121 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1042878000122 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1042878000123 substrate binding site [chemical binding]; other site 1042878000124 ligand binding site [chemical binding]; other site 1042878000125 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878000126 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1042878000127 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878000128 DNA-binding site [nucleotide binding]; DNA binding site 1042878000129 UTRA domain; Region: UTRA; pfam07702 1042878000130 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 1042878000131 putative active site [active] 1042878000132 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878000133 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 1042878000134 putative ligand binding site [chemical binding]; other site 1042878000135 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 1042878000136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878000137 NAD(P) binding site [chemical binding]; other site 1042878000138 active site 1042878000139 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878000140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878000141 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1042878000142 putative dimerization interface [polypeptide binding]; other site 1042878000143 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1042878000144 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878000145 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042878000146 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1042878000147 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1042878000148 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1042878000149 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878000150 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1042878000151 Coenzyme A binding pocket [chemical binding]; other site 1042878000152 AMP nucleosidase; Provisional; Region: PRK08292 1042878000153 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1042878000154 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1042878000155 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1042878000156 2-isopropylmalate synthase; Validated; Region: PRK03739 1042878000157 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1042878000158 active site 1042878000159 catalytic residues [active] 1042878000160 metal binding site [ion binding]; metal-binding site 1042878000161 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1042878000162 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 1042878000163 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1042878000164 G1 box; other site 1042878000165 GTP/Mg2+ binding site [chemical binding]; other site 1042878000166 Switch I region; other site 1042878000167 G2 box; other site 1042878000168 G3 box; other site 1042878000169 Switch II region; other site 1042878000170 G4 box; other site 1042878000171 G5 box; other site 1042878000172 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1042878000173 Nucleoside recognition; Region: Gate; pfam07670 1042878000174 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1042878000175 Nucleoside recognition; Region: Gate; pfam07670 1042878000176 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 1042878000177 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878000178 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1042878000179 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 1042878000180 putative dimerization interface [polypeptide binding]; other site 1042878000181 putative substrate binding pocket [chemical binding]; other site 1042878000182 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878000183 active site 1042878000184 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878000185 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878000186 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878000187 L-lactate permease; Region: Lactate_perm; cl00701 1042878000188 glycolate transporter; Provisional; Region: PRK09695 1042878000189 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1042878000190 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1042878000191 4Fe-4S binding domain; Region: Fer4; pfam00037 1042878000192 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1042878000193 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 1042878000194 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1042878000195 Cysteine-rich domain; Region: CCG; pfam02754 1042878000196 Cysteine-rich domain; Region: CCG; pfam02754 1042878000197 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042878000198 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878000199 DNA-binding site [nucleotide binding]; DNA binding site 1042878000200 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1042878000201 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1042878000202 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1042878000203 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1042878000204 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 1042878000205 putative deacylase active site [active] 1042878000206 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878000207 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878000208 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878000209 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878000210 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878000211 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878000212 putative effector binding pocket; other site 1042878000213 dimerization interface [polypeptide binding]; other site 1042878000214 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1042878000215 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878000216 putative substrate translocation pore; other site 1042878000217 short chain dehydrogenase; Provisional; Region: PRK12937 1042878000218 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878000219 NAD(P) binding site [chemical binding]; other site 1042878000220 active site 1042878000221 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1042878000222 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 1042878000223 FAD binding pocket [chemical binding]; other site 1042878000224 FAD binding motif [chemical binding]; other site 1042878000225 phosphate binding motif [ion binding]; other site 1042878000226 beta-alpha-beta structure motif; other site 1042878000227 NAD binding pocket [chemical binding]; other site 1042878000228 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1042878000229 Class II fumarases; Region: Fumarase_classII; cd01362 1042878000230 active site 1042878000231 tetramer interface [polypeptide binding]; other site 1042878000232 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878000233 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1042878000234 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042878000235 dimerization interface [polypeptide binding]; other site 1042878000236 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 1042878000237 dimerization interface [polypeptide binding]; other site 1042878000238 Cache domain; Region: Cache_1; pfam02743 1042878000239 PAS fold; Region: PAS_4; pfam08448 1042878000240 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878000241 putative active site [active] 1042878000242 heme pocket [chemical binding]; other site 1042878000243 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042878000244 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878000245 metal binding site [ion binding]; metal-binding site 1042878000246 active site 1042878000247 I-site; other site 1042878000248 CHASE domain; Region: CHASE; pfam03924 1042878000249 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878000250 PAS domain; Region: PAS_9; pfam13426 1042878000251 putative active site [active] 1042878000252 heme pocket [chemical binding]; other site 1042878000253 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042878000254 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878000255 metal binding site [ion binding]; metal-binding site 1042878000256 active site 1042878000257 I-site; other site 1042878000258 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1042878000259 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 1042878000260 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878000261 Walker A/P-loop; other site 1042878000262 ATP binding site [chemical binding]; other site 1042878000263 Q-loop/lid; other site 1042878000264 ABC transporter signature motif; other site 1042878000265 Walker B; other site 1042878000266 D-loop; other site 1042878000267 H-loop/switch region; other site 1042878000268 TOBE domain; Region: TOBE_2; pfam08402 1042878000269 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 1042878000270 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878000271 dimer interface [polypeptide binding]; other site 1042878000272 conserved gate region; other site 1042878000273 ABC-ATPase subunit interface; other site 1042878000274 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878000275 dimer interface [polypeptide binding]; other site 1042878000276 conserved gate region; other site 1042878000277 putative PBP binding loops; other site 1042878000278 ABC-ATPase subunit interface; other site 1042878000279 putative 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate-binding protein; Region: phnS2; TIGR03261 1042878000280 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1042878000281 Predicted transcriptional regulators [Transcription]; Region: COG1695 1042878000282 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1042878000283 EamA-like transporter family; Region: EamA; pfam00892 1042878000284 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1042878000285 EamA-like transporter family; Region: EamA; pfam00892 1042878000286 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878000287 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878000288 non-specific DNA binding site [nucleotide binding]; other site 1042878000289 salt bridge; other site 1042878000290 sequence-specific DNA binding site [nucleotide binding]; other site 1042878000291 ferric uptake regulator; Provisional; Region: fur; PRK09462 1042878000292 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1042878000293 metal binding site 2 [ion binding]; metal-binding site 1042878000294 putative DNA binding helix; other site 1042878000295 metal binding site 1 [ion binding]; metal-binding site 1042878000296 dimer interface [polypeptide binding]; other site 1042878000297 structural Zn2+ binding site [ion binding]; other site 1042878000298 PRC-barrel domain; Region: PRC; pfam05239 1042878000299 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042878000300 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878000301 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878000302 dimerization interface [polypeptide binding]; other site 1042878000303 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1042878000304 elongation factor G; Reviewed; Region: PRK00007 1042878000305 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1042878000306 G1 box; other site 1042878000307 putative GEF interaction site [polypeptide binding]; other site 1042878000308 GTP/Mg2+ binding site [chemical binding]; other site 1042878000309 Switch I region; other site 1042878000310 G2 box; other site 1042878000311 G3 box; other site 1042878000312 Switch II region; other site 1042878000313 G4 box; other site 1042878000314 G5 box; other site 1042878000315 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 1042878000316 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 1042878000317 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 1042878000318 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878000319 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878000320 active site 1042878000321 phosphorylation site [posttranslational modification] 1042878000322 intermolecular recognition site; other site 1042878000323 dimerization interface [polypeptide binding]; other site 1042878000324 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878000325 DNA binding residues [nucleotide binding] 1042878000326 dimerization interface [polypeptide binding]; other site 1042878000327 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042878000328 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878000329 DNA-binding site [nucleotide binding]; DNA binding site 1042878000330 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1042878000331 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1042878000332 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 1042878000333 active site 1042878000334 tetramer interface [polypeptide binding]; other site 1042878000335 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878000336 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878000337 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1042878000338 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1042878000339 dimer interface [polypeptide binding]; other site 1042878000340 NADP binding site [chemical binding]; other site 1042878000341 catalytic residues [active] 1042878000342 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 1042878000343 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1042878000344 putative active site [active] 1042878000345 catalytic residue [active] 1042878000346 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1042878000347 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1042878000348 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1042878000349 active site residue [active] 1042878000350 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 1042878000351 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878000352 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878000353 trimer interface [polypeptide binding]; other site 1042878000354 eyelet of channel; other site 1042878000355 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 1042878000356 active site pocket [active] 1042878000357 oxyanion hole [active] 1042878000358 catalytic triad [active] 1042878000359 active site nucleophile [active] 1042878000360 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1042878000361 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1042878000362 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878000363 catalytic residue [active] 1042878000364 OPT oligopeptide transporter protein; Region: OPT; cl14607 1042878000365 OPT oligopeptide transporter protein; Region: OPT; cl14607 1042878000366 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878000367 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1042878000368 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878000369 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878000370 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878000371 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878000372 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1042878000373 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1042878000374 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1042878000375 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1042878000376 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878000377 Walker A motif; other site 1042878000378 ATP binding site [chemical binding]; other site 1042878000379 Walker B motif; other site 1042878000380 arginine finger; other site 1042878000381 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878000382 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 1042878000383 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1042878000384 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1042878000385 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1042878000386 tetramer interface [polypeptide binding]; other site 1042878000387 TPP-binding site [chemical binding]; other site 1042878000388 heterodimer interface [polypeptide binding]; other site 1042878000389 phosphorylation loop region [posttranslational modification] 1042878000390 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1042878000391 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1042878000392 alpha subunit interface [polypeptide binding]; other site 1042878000393 TPP binding site [chemical binding]; other site 1042878000394 heterodimer interface [polypeptide binding]; other site 1042878000395 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1042878000396 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 1042878000397 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1042878000398 E3 interaction surface; other site 1042878000399 lipoyl attachment site [posttranslational modification]; other site 1042878000400 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1042878000401 catalytic site [active] 1042878000402 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1042878000403 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1042878000404 OsmC-like protein; Region: OsmC; cl00767 1042878000405 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1042878000406 GIY-YIG motif/motif A; other site 1042878000407 putative active site [active] 1042878000408 putative metal binding site [ion binding]; other site 1042878000409 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1042878000410 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878000411 MarR family; Region: MarR; pfam01047 1042878000412 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1042878000413 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1042878000414 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1042878000415 protein binding site [polypeptide binding]; other site 1042878000416 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1042878000417 protein binding site [polypeptide binding]; other site 1042878000418 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878000419 putative substrate translocation pore; other site 1042878000420 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878000421 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878000422 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1042878000423 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1042878000424 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1042878000425 Protein of unknown function DUF58; Region: DUF58; pfam01882 1042878000426 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878000427 Walker A motif; other site 1042878000428 ATP binding site [chemical binding]; other site 1042878000429 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1042878000430 Walker B motif; other site 1042878000431 arginine finger; other site 1042878000432 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1042878000433 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1042878000434 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878000435 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878000436 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1042878000437 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878000438 putative substrate translocation pore; other site 1042878000439 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878000440 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878000441 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878000442 putative effector binding pocket; other site 1042878000443 dimerization interface [polypeptide binding]; other site 1042878000444 YGGT family; Region: YGGT; pfam02325 1042878000445 YGGT family; Region: YGGT; pfam02325 1042878000446 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1042878000447 MarR family; Region: MarR_2; pfam12802 1042878000448 acyl-CoA synthetase; Validated; Region: PRK08316 1042878000449 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878000450 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1042878000451 acyl-activating enzyme (AAE) consensus motif; other site 1042878000452 acyl-activating enzyme (AAE) consensus motif; other site 1042878000453 putative AMP binding site [chemical binding]; other site 1042878000454 putative active site [active] 1042878000455 putative CoA binding site [chemical binding]; other site 1042878000456 Dienelactone hydrolase family; Region: DLH; pfam01738 1042878000457 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 1042878000458 PLD-like domain; Region: PLDc_2; pfam13091 1042878000459 putative active site [active] 1042878000460 catalytic site [active] 1042878000461 Dodecin; Region: Dodecin; pfam07311 1042878000462 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1042878000463 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1042878000464 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1042878000465 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1042878000466 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 1042878000467 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1042878000468 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1042878000469 TadE-like protein; Region: TadE; pfam07811 1042878000470 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1042878000471 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1042878000472 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1042878000473 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1042878000474 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1042878000475 AAA domain; Region: AAA_31; pfam13614 1042878000476 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 1042878000477 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1042878000478 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1042878000479 ATP binding site [chemical binding]; other site 1042878000480 Walker A motif; other site 1042878000481 hexamer interface [polypeptide binding]; other site 1042878000482 Walker B motif; other site 1042878000483 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1042878000484 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1042878000485 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1042878000486 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1042878000487 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1042878000488 TPR motif; other site 1042878000489 binding surface 1042878000490 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 1042878000491 Predicted membrane protein [Function unknown]; Region: COG4655 1042878000492 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 1042878000493 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1042878000494 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878000495 Walker A motif; other site 1042878000496 ATP binding site [chemical binding]; other site 1042878000497 Walker B motif; other site 1042878000498 arginine finger; other site 1042878000499 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878000500 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1042878000501 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1042878000502 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1042878000503 active site 1042878000504 metal binding site [ion binding]; metal-binding site 1042878000505 DNA binding site [nucleotide binding] 1042878000506 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1042878000507 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878000508 AAA domain; Region: AAA_23; pfam13476 1042878000509 Walker A/P-loop; other site 1042878000510 ATP binding site [chemical binding]; other site 1042878000511 Q-loop/lid; other site 1042878000512 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1042878000513 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878000514 ABC transporter signature motif; other site 1042878000515 Walker B; other site 1042878000516 D-loop; other site 1042878000517 H-loop/switch region; other site 1042878000518 Coenzyme A transferase; Region: CoA_trans; cl17247 1042878000519 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1042878000520 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1042878000521 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878000522 dimer interface [polypeptide binding]; other site 1042878000523 active site 1042878000524 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878000525 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878000526 NAD(P) binding site [chemical binding]; other site 1042878000527 active site 1042878000528 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878000529 tricarballylate utilization protein B; Provisional; Region: PRK15033 1042878000530 tricarballylate dehydrogenase; Validated; Region: PRK08274 1042878000531 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878000532 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878000533 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1042878000534 putative dimerization interface [polypeptide binding]; other site 1042878000535 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878000536 FIST N domain; Region: FIST; pfam08495 1042878000537 FIST C domain; Region: FIST_C; pfam10442 1042878000538 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1042878000539 active site lid residues [active] 1042878000540 substrate binding pocket [chemical binding]; other site 1042878000541 catalytic residues [active] 1042878000542 substrate-Mg2+ binding site; other site 1042878000543 aspartate-rich region 1; other site 1042878000544 aspartate-rich region 2; other site 1042878000545 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1042878000546 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1042878000547 catalytic core [active] 1042878000548 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1042878000549 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878000550 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1042878000551 putative dimerization interface [polypeptide binding]; other site 1042878000552 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1042878000553 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1042878000554 dimer interface [polypeptide binding]; other site 1042878000555 NADP binding site [chemical binding]; other site 1042878000556 catalytic residues [active] 1042878000557 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1042878000558 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1042878000559 inhibitor site; inhibition site 1042878000560 active site 1042878000561 dimer interface [polypeptide binding]; other site 1042878000562 catalytic residue [active] 1042878000563 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878000564 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878000565 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878000566 dimerization interface [polypeptide binding]; other site 1042878000567 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878000568 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1042878000569 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1042878000570 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1042878000571 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 1042878000572 putative active site pocket [active] 1042878000573 putative metal binding site [ion binding]; other site 1042878000574 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878000575 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878000576 putative substrate translocation pore; other site 1042878000577 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1042878000578 Amidohydrolase; Region: Amidohydro_2; pfam04909 1042878000579 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1042878000580 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878000581 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1042878000582 putative dimerization interface [polypeptide binding]; other site 1042878000583 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1042878000584 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1042878000585 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878000586 putative substrate translocation pore; other site 1042878000587 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878000588 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1042878000589 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878000590 Coenzyme A binding pocket [chemical binding]; other site 1042878000591 Predicted transcriptional regulators [Transcription]; Region: COG1695 1042878000592 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1042878000593 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 1042878000594 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1042878000595 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1042878000596 FMN binding site [chemical binding]; other site 1042878000597 substrate binding site [chemical binding]; other site 1042878000598 putative catalytic residue [active] 1042878000599 SnoaL-like domain; Region: SnoaL_2; pfam12680 1042878000600 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1042878000601 Int/Topo IB signature motif; other site 1042878000602 DNA binding site [nucleotide binding] 1042878000603 active site 1042878000604 UDP-glucose 4-epimerase; Region: PLN02240 1042878000605 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1042878000606 NAD binding site [chemical binding]; other site 1042878000607 homodimer interface [polypeptide binding]; other site 1042878000608 active site 1042878000609 substrate binding site [chemical binding]; other site 1042878000610 H-NS histone family; Region: Histone_HNS; pfam00816 1042878000611 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1042878000612 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1042878000613 dimer interface [polypeptide binding]; other site 1042878000614 ligand binding site [chemical binding]; other site 1042878000615 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1042878000616 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042878000617 dimer interface [polypeptide binding]; other site 1042878000618 putative CheW interface [polypeptide binding]; other site 1042878000619 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878000620 metal binding site [ion binding]; metal-binding site 1042878000621 active site 1042878000622 I-site; other site 1042878000623 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1042878000624 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878000625 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878000626 active site 1042878000627 phosphorylation site [posttranslational modification] 1042878000628 intermolecular recognition site; other site 1042878000629 dimerization interface [polypeptide binding]; other site 1042878000630 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 1042878000631 putative CheA interaction surface; other site 1042878000632 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878000633 PAS fold; Region: PAS_3; pfam08447 1042878000634 putative active site [active] 1042878000635 heme pocket [chemical binding]; other site 1042878000636 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1042878000637 dimerization interface [polypeptide binding]; other site 1042878000638 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042878000639 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042878000640 dimer interface [polypeptide binding]; other site 1042878000641 putative CheW interface [polypeptide binding]; other site 1042878000642 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1042878000643 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042878000644 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042878000645 dimer interface [polypeptide binding]; other site 1042878000646 putative CheW interface [polypeptide binding]; other site 1042878000647 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 1042878000648 transcriptional activator FlhD; Provisional; Region: PRK02909 1042878000649 transcriptional activator FlhC; Provisional; Region: PRK12722 1042878000650 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1042878000651 flagellar motor protein MotA; Validated; Region: PRK09110 1042878000652 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1042878000653 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1042878000654 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042878000655 ligand binding site [chemical binding]; other site 1042878000656 chemotaxis protein CheA; Provisional; Region: PRK10547 1042878000657 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1042878000658 putative binding surface; other site 1042878000659 active site 1042878000660 CheY binding; Region: CheY-binding; pfam09078 1042878000661 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1042878000662 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878000663 ATP binding site [chemical binding]; other site 1042878000664 Mg2+ binding site [ion binding]; other site 1042878000665 G-X-G motif; other site 1042878000666 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 1042878000667 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 1042878000668 putative CheA interaction surface; other site 1042878000669 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 1042878000670 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1042878000671 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1042878000672 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 1042878000673 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1042878000674 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878000675 active site 1042878000676 phosphorylation site [posttranslational modification] 1042878000677 intermolecular recognition site; other site 1042878000678 dimerization interface [polypeptide binding]; other site 1042878000679 CheB methylesterase; Region: CheB_methylest; pfam01339 1042878000680 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1042878000681 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878000682 active site 1042878000683 phosphorylation site [posttranslational modification] 1042878000684 intermolecular recognition site; other site 1042878000685 dimerization interface [polypeptide binding]; other site 1042878000686 chemotaxis regulator CheZ; Provisional; Region: PRK11166 1042878000687 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 1042878000688 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 1042878000689 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 1042878000690 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1042878000691 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1042878000692 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1042878000693 FHIPEP family; Region: FHIPEP; pfam00771 1042878000694 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 1042878000695 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1042878000696 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1042878000697 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1042878000698 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1042878000699 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878000700 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1042878000701 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042878000702 DNA binding residues [nucleotide binding] 1042878000703 Flagellar protein FlhE; Region: FlhE; pfam06366 1042878000704 FlgN protein; Region: FlgN; pfam05130 1042878000705 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1042878000706 SAF-like; Region: SAF_2; pfam13144 1042878000707 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1042878000708 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1042878000709 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1042878000710 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1042878000711 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1042878000712 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1042878000713 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1042878000714 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1042878000715 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1042878000716 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1042878000717 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1042878000718 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1042878000719 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1042878000720 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1042878000721 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1042878000722 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 1042878000723 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1042878000724 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1042878000725 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12697 1042878000726 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1042878000727 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1042878000728 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1042878000729 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12712 1042878000730 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1042878000731 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1042878000732 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878000733 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878000734 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878000735 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 1042878000736 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1042878000737 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 1042878000738 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1042878000739 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1042878000740 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 1042878000741 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1042878000742 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1042878000743 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878000744 catalytic triad [active] 1042878000745 dimer interface [polypeptide binding]; other site 1042878000746 conserved cis-peptide bond; other site 1042878000747 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878000748 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878000749 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878000750 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1042878000751 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878000752 active site 1042878000753 phosphorylation site [posttranslational modification] 1042878000754 intermolecular recognition site; other site 1042878000755 dimerization interface [polypeptide binding]; other site 1042878000756 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878000757 DNA binding residues [nucleotide binding] 1042878000758 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878000759 active site 1042878000760 phosphorylation site [posttranslational modification] 1042878000761 intermolecular recognition site; other site 1042878000762 dimerization interface [polypeptide binding]; other site 1042878000763 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1042878000764 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1042878000765 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878000766 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878000767 eyelet of channel; other site 1042878000768 trimer interface [polypeptide binding]; other site 1042878000769 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 1042878000770 Transmembrane secretion effector; Region: MFS_3; pfam05977 1042878000771 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878000772 Predicted membrane protein [Function unknown]; Region: COG2259 1042878000773 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1042878000774 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1042878000775 active site 1042878000776 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042878000777 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042878000778 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042878000779 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1042878000780 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878000781 catalytic triad [active] 1042878000782 dimer interface [polypeptide binding]; other site 1042878000783 conserved cis-peptide bond; other site 1042878000784 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1042878000785 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878000786 active site 1042878000787 phosphorylation site [posttranslational modification] 1042878000788 intermolecular recognition site; other site 1042878000789 dimerization interface [polypeptide binding]; other site 1042878000790 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878000791 DNA binding residues [nucleotide binding] 1042878000792 dimerization interface [polypeptide binding]; other site 1042878000793 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1042878000794 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1042878000795 substrate binding site [chemical binding]; other site 1042878000796 activation loop (A-loop); other site 1042878000797 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1042878000798 AAA ATPase domain; Region: AAA_16; pfam13191 1042878000799 Predicted ATPase [General function prediction only]; Region: COG3899 1042878000800 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1042878000801 GAF domain; Region: GAF; pfam01590 1042878000802 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878000803 PAS domain; Region: PAS_9; pfam13426 1042878000804 putative active site [active] 1042878000805 heme pocket [chemical binding]; other site 1042878000806 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878000807 dimer interface [polypeptide binding]; other site 1042878000808 phosphorylation site [posttranslational modification] 1042878000809 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878000810 ATP binding site [chemical binding]; other site 1042878000811 G-X-G motif; other site 1042878000812 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042878000813 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1042878000814 FMN binding site [chemical binding]; other site 1042878000815 active site 1042878000816 substrate binding site [chemical binding]; other site 1042878000817 catalytic residue [active] 1042878000818 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878000819 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878000820 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878000821 putative effector binding pocket; other site 1042878000822 dimerization interface [polypeptide binding]; other site 1042878000823 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878000824 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878000825 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1042878000826 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1042878000827 Na binding site [ion binding]; other site 1042878000828 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1042878000829 hypothetical protein; Provisional; Region: PRK07236 1042878000830 FAD binding domain; Region: FAD_binding_3; pfam01494 1042878000831 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878000832 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 1042878000833 dimer interface [polypeptide binding]; other site 1042878000834 putative metal binding site [ion binding]; other site 1042878000835 Amidohydrolase; Region: Amidohydro_2; pfam04909 1042878000836 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 1042878000837 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 1042878000838 trimer interface [polypeptide binding]; other site 1042878000839 putative Zn binding site [ion binding]; other site 1042878000840 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 1042878000841 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878000842 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878000843 active site 1042878000844 phosphorylation site [posttranslational modification] 1042878000845 intermolecular recognition site; other site 1042878000846 dimerization interface [polypeptide binding]; other site 1042878000847 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878000848 DNA binding residues [nucleotide binding] 1042878000849 dimerization interface [polypeptide binding]; other site 1042878000850 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878000851 dimer interface [polypeptide binding]; other site 1042878000852 phosphorylation site [posttranslational modification] 1042878000853 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878000854 ATP binding site [chemical binding]; other site 1042878000855 Mg2+ binding site [ion binding]; other site 1042878000856 G-X-G motif; other site 1042878000857 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1042878000858 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878000859 active site 1042878000860 phosphorylation site [posttranslational modification] 1042878000861 intermolecular recognition site; other site 1042878000862 dimerization interface [polypeptide binding]; other site 1042878000863 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1042878000864 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 1042878000865 multidrug resistance protein MdtN; Provisional; Region: PRK10476 1042878000866 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878000867 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878000868 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1042878000869 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878000870 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1042878000871 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878000872 NAD(P) binding site [chemical binding]; other site 1042878000873 active site 1042878000874 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878000875 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878000876 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878000877 dimerization interface [polypeptide binding]; other site 1042878000878 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 1042878000879 active site 1042878000880 intersubunit interface [polypeptide binding]; other site 1042878000881 catalytic residue [active] 1042878000882 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 1042878000883 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1042878000884 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1042878000885 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1042878000886 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1042878000887 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878000888 Walker A/P-loop; other site 1042878000889 ATP binding site [chemical binding]; other site 1042878000890 Q-loop/lid; other site 1042878000891 ABC transporter signature motif; other site 1042878000892 Walker B; other site 1042878000893 D-loop; other site 1042878000894 H-loop/switch region; other site 1042878000895 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1042878000896 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878000897 substrate binding pocket [chemical binding]; other site 1042878000898 membrane-bound complex binding site; other site 1042878000899 hinge residues; other site 1042878000900 selenophosphate synthetase; Provisional; Region: PRK00943 1042878000901 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1042878000902 dimerization interface [polypeptide binding]; other site 1042878000903 putative ATP binding site [chemical binding]; other site 1042878000904 putative glycosyltransferase, TIGR04348 family; Region: TIGR04348 1042878000905 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1042878000906 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 1042878000907 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1042878000908 Cupin domain; Region: Cupin_2; pfam07883 1042878000909 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042878000910 FAD binding domain; Region: FAD_binding_4; pfam01565 1042878000911 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1042878000912 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1042878000913 active site 1042878000914 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878000915 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878000916 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1042878000917 putative effector binding pocket; other site 1042878000918 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1042878000919 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1042878000920 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1042878000921 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1042878000922 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042878000923 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1042878000924 putative NAD(P) binding site [chemical binding]; other site 1042878000925 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1042878000926 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878000927 NAD(P) binding site [chemical binding]; other site 1042878000928 active site 1042878000929 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 1042878000930 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042878000931 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1042878000932 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878000933 DNA-binding site [nucleotide binding]; DNA binding site 1042878000934 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878000935 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878000936 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878000937 dimer interface [polypeptide binding]; other site 1042878000938 phosphorylation site [posttranslational modification] 1042878000939 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878000940 ATP binding site [chemical binding]; other site 1042878000941 G-X-G motif; other site 1042878000942 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1042878000943 MULE transposase domain; Region: MULE; pfam10551 1042878000944 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 1042878000945 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878000946 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878000947 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878000948 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1042878000949 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1042878000950 DNA binding residues [nucleotide binding] 1042878000951 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042878000952 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 1042878000953 putative active site [active] 1042878000954 putative FMN binding site [chemical binding]; other site 1042878000955 putative substrate binding site [chemical binding]; other site 1042878000956 putative catalytic residue [active] 1042878000957 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1042878000958 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1042878000959 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1042878000960 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1042878000961 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1042878000962 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1042878000963 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1042878000964 dimer interface [polypeptide binding]; other site 1042878000965 NADP binding site [chemical binding]; other site 1042878000966 catalytic residues [active] 1042878000967 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878000968 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878000969 putative substrate translocation pore; other site 1042878000970 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 1042878000971 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878000972 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1042878000973 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878000974 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878000975 dimerization interface [polypeptide binding]; other site 1042878000976 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 1042878000977 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1042878000978 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1042878000979 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878000980 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1042878000981 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878000982 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878000983 Amidohydrolase; Region: Amidohydro_2; pfam04909 1042878000984 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878000985 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1042878000986 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1042878000987 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1042878000988 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878000989 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878000990 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042878000991 dimerization interface [polypeptide binding]; other site 1042878000992 Homeodomain-like domain; Region: HTH_23; pfam13384 1042878000993 Winged helix-turn helix; Region: HTH_29; pfam13551 1042878000994 Homeodomain-like domain; Region: HTH_32; pfam13565 1042878000995 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1042878000996 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878000997 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878000998 dimerization interface [polypeptide binding]; other site 1042878000999 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878001000 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878001001 putative substrate translocation pore; other site 1042878001002 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 1042878001003 gating phenylalanine in ion channel; other site 1042878001004 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 1042878001005 putative effector binding pocket; other site 1042878001006 putative dimerization interface [polypeptide binding]; other site 1042878001007 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1042878001008 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042878001009 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1042878001010 N-terminal domain interface [polypeptide binding]; other site 1042878001011 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878001012 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878001013 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1042878001014 NmrA (a transcriptional regulator) and triphenylmethane reductase (TMR) like proteins, subgroup 1, atypical (a) SDRs; Region: NmrA_TMR_like_1_SDR_a; cd05231 1042878001015 putative NADP binding site [chemical binding]; other site 1042878001016 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1042878001017 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042878001018 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042878001019 ABC transporter; Region: ABC_tran_2; pfam12848 1042878001020 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042878001021 HTH-like domain; Region: HTH_21; pfam13276 1042878001022 Integrase core domain; Region: rve; pfam00665 1042878001023 Integrase core domain; Region: rve_3; pfam13683 1042878001024 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1042878001025 Amidase; Region: Amidase; cl11426 1042878001026 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878001027 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878001028 putative substrate translocation pore; other site 1042878001029 allantoate amidohydrolase; Reviewed; Region: PRK12893 1042878001030 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1042878001031 active site 1042878001032 metal binding site [ion binding]; metal-binding site 1042878001033 dimer interface [polypeptide binding]; other site 1042878001034 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1042878001035 homotrimer interaction site [polypeptide binding]; other site 1042878001036 putative active site [active] 1042878001037 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1042878001038 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878001039 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878001040 putative substrate translocation pore; other site 1042878001041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878001042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878001043 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878001044 dimerization interface [polypeptide binding]; other site 1042878001045 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042878001046 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878001047 Cupin domain; Region: Cupin_2; pfam07883 1042878001048 Predicted transcriptional regulators [Transcription]; Region: COG1733 1042878001049 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1042878001050 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1042878001051 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878001052 putative substrate translocation pore; other site 1042878001053 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042878001054 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878001055 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878001056 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1042878001057 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1042878001058 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1042878001059 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042878001060 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 1042878001061 SnoaL-like domain; Region: SnoaL_3; pfam13474 1042878001062 PLD-like domain; Region: PLDc_2; pfam13091 1042878001063 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1042878001064 putative active site [active] 1042878001065 catalytic site [active] 1042878001066 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 1042878001067 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1042878001068 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1042878001069 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878001070 catalytic triad [active] 1042878001071 dimer interface [polypeptide binding]; other site 1042878001072 conserved cis-peptide bond; other site 1042878001073 Patatin-like phospholipase; Region: Patatin; pfam01734 1042878001074 nucleophile elbow; other site 1042878001075 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1042878001076 SAM (Sterile alpha motif ); Region: SAM_superfamily; cl15755 1042878001077 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1042878001078 Strictosidine synthase; Region: Str_synth; pfam03088 1042878001079 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878001080 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1042878001081 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1042878001082 ligand binding site [chemical binding]; other site 1042878001083 NAD binding site [chemical binding]; other site 1042878001084 dimerization interface [polypeptide binding]; other site 1042878001085 catalytic site [active] 1042878001086 hypothetical protein; Validated; Region: PRK06201 1042878001087 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1042878001088 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878001089 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878001090 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878001091 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878001092 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878001093 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878001094 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1042878001095 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1042878001096 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1042878001097 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1042878001098 homodimer interface [polypeptide binding]; other site 1042878001099 substrate-cofactor binding pocket; other site 1042878001100 catalytic residue [active] 1042878001101 amino acid transporter; Region: 2A0306; TIGR00909 1042878001102 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1042878001103 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1042878001104 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1042878001105 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1042878001106 NAD binding site [chemical binding]; other site 1042878001107 Phe binding site; other site 1042878001108 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1042878001109 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1042878001110 active site 1042878001111 catalytic residues [active] 1042878001112 metal binding site [ion binding]; metal-binding site 1042878001113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 1042878001114 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 1042878001115 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1042878001116 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1042878001117 tetramer interface [polypeptide binding]; other site 1042878001118 active site 1042878001119 UTRA domain; Region: UTRA; pfam07702 1042878001120 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 1042878001121 DNA binding site [nucleotide binding] 1042878001122 Bacterial transcriptional activator domain; Region: BTAD; smart01043 1042878001123 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042878001124 binding surface 1042878001125 TPR motif; other site 1042878001126 cyclase homology domain; Region: CHD; cd07302 1042878001127 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1042878001128 dimer interface [polypeptide binding]; other site 1042878001129 nucleotidyl binding site; other site 1042878001130 metal binding site [ion binding]; metal-binding site 1042878001131 Predicted ATPase [General function prediction only]; Region: COG3899 1042878001132 AAA ATPase domain; Region: AAA_16; pfam13191 1042878001133 Predicted ATPase [General function prediction only]; Region: COG3903 1042878001134 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1042878001135 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878001136 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878001137 trimer interface [polypeptide binding]; other site 1042878001138 eyelet of channel; other site 1042878001139 Domain of unknown function (DUF336); Region: DUF336; pfam03928 1042878001140 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878001141 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878001142 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1042878001143 Cytochrome c; Region: Cytochrom_C; cl11414 1042878001144 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 1042878001145 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042878001146 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878001147 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878001148 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1042878001149 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1042878001150 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042878001151 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1042878001152 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 1042878001153 Integrase core domain; Region: rve_3; pfam13683 1042878001154 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1042878001155 Helix-turn-helix domain; Region: HTH_38; pfam13936 1042878001156 Integrase core domain; Region: rve; pfam00665 1042878001157 putative transposase OrfB; Reviewed; Region: PHA02517 1042878001158 Integrase core domain; Region: rve; pfam00665 1042878001159 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 1042878001160 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878001161 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878001162 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 1042878001163 XapX domain; Region: XapX; TIGR03510 1042878001164 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 1042878001165 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878001166 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878001167 dimer interface [polypeptide binding]; other site 1042878001168 phosphorylation site [posttranslational modification] 1042878001169 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878001170 ATP binding site [chemical binding]; other site 1042878001171 Mg2+ binding site [ion binding]; other site 1042878001172 G-X-G motif; other site 1042878001173 hypothetical protein; Provisional; Region: PRK07179 1042878001174 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1042878001175 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878001176 catalytic residue [active] 1042878001177 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878001178 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878001179 active site 1042878001180 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878001181 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878001182 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878001183 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878001184 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878001185 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878001186 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1042878001187 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1042878001188 MarR family; Region: MarR_2; cl17246 1042878001189 cysteine desulfurase; Provisional; Region: PRK14012 1042878001190 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1042878001191 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878001192 catalytic residue [active] 1042878001193 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1042878001194 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 1042878001195 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878001196 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 1042878001197 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1042878001198 amidase; Provisional; Region: PRK07056 1042878001199 Amidase; Region: Amidase; cl11426 1042878001200 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878001201 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1042878001202 putative ligand binding site [chemical binding]; other site 1042878001203 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 1042878001204 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878001205 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878001206 Walker A/P-loop; other site 1042878001207 ATP binding site [chemical binding]; other site 1042878001208 Q-loop/lid; other site 1042878001209 ABC transporter signature motif; other site 1042878001210 Walker B; other site 1042878001211 D-loop; other site 1042878001212 H-loop/switch region; other site 1042878001213 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878001214 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878001215 Walker A/P-loop; other site 1042878001216 ATP binding site [chemical binding]; other site 1042878001217 Q-loop/lid; other site 1042878001218 ABC transporter signature motif; other site 1042878001219 Walker B; other site 1042878001220 D-loop; other site 1042878001221 H-loop/switch region; other site 1042878001222 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878001223 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878001224 TM-ABC transporter signature motif; other site 1042878001225 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1042878001226 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878001227 TM-ABC transporter signature motif; other site 1042878001228 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 1042878001229 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042878001230 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1042878001231 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1042878001232 N-terminal plug; other site 1042878001233 ligand-binding site [chemical binding]; other site 1042878001234 BNR repeat-like domain; Region: BNR_2; pfam13088 1042878001235 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1042878001236 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 1042878001237 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878001238 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878001239 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1042878001240 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878001241 DNA-binding site [nucleotide binding]; DNA binding site 1042878001242 UTRA domain; Region: UTRA; pfam07702 1042878001243 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042878001244 active site 1042878001245 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878001246 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878001247 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 1042878001248 putative effector binding pocket; other site 1042878001249 putative dimerization interface [polypeptide binding]; other site 1042878001250 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1042878001251 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042878001252 putative NAD(P) binding site [chemical binding]; other site 1042878001253 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 1042878001254 hypothetical protein; Provisional; Region: PRK09040 1042878001255 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042878001256 ligand binding site [chemical binding]; other site 1042878001257 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 1042878001258 Domain of unknown function (DUF802); Region: DUF802; pfam05650 1042878001259 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 1042878001260 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878001261 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878001262 active site 1042878001263 phosphorylation site [posttranslational modification] 1042878001264 intermolecular recognition site; other site 1042878001265 dimerization interface [polypeptide binding]; other site 1042878001266 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878001267 DNA binding residues [nucleotide binding] 1042878001268 dimerization interface [polypeptide binding]; other site 1042878001269 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878001270 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878001271 dimer interface [polypeptide binding]; other site 1042878001272 phosphorylation site [posttranslational modification] 1042878001273 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878001274 ATP binding site [chemical binding]; other site 1042878001275 Mg2+ binding site [ion binding]; other site 1042878001276 G-X-G motif; other site 1042878001277 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878001278 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878001279 active site 1042878001280 phosphorylation site [posttranslational modification] 1042878001281 intermolecular recognition site; other site 1042878001282 dimerization interface [polypeptide binding]; other site 1042878001283 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1042878001284 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1042878001285 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 1042878001286 dimer interface [polypeptide binding]; other site 1042878001287 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878001288 ligand binding site [chemical binding]; other site 1042878001289 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1042878001290 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878001291 substrate binding pocket [chemical binding]; other site 1042878001292 membrane-bound complex binding site; other site 1042878001293 hinge residues; other site 1042878001294 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1042878001295 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1042878001296 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1042878001297 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1042878001298 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878001299 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878001300 DNA-binding site [nucleotide binding]; DNA binding site 1042878001301 FCD domain; Region: FCD; pfam07729 1042878001302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878001303 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878001304 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878001305 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1042878001306 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1042878001307 NADP binding site [chemical binding]; other site 1042878001308 dimer interface [polypeptide binding]; other site 1042878001309 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042878001310 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878001311 substrate binding site [chemical binding]; other site 1042878001312 oxyanion hole (OAH) forming residues; other site 1042878001313 trimer interface [polypeptide binding]; other site 1042878001314 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1042878001315 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878001316 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878001317 dimerization interface [polypeptide binding]; other site 1042878001318 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 1042878001319 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1042878001320 octamer interface [polypeptide binding]; other site 1042878001321 active site 1042878001322 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878001323 Activator of aromatic catabolism; Region: XylR_N; pfam06505 1042878001324 V4R domain; Region: V4R; pfam02830 1042878001325 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1042878001326 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878001327 Walker A motif; other site 1042878001328 ATP binding site [chemical binding]; other site 1042878001329 Walker B motif; other site 1042878001330 arginine finger; other site 1042878001331 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1042878001332 [2Fe-2S] cluster binding site [ion binding]; other site 1042878001333 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878001334 Phenol hydroxylase subunit; Region: Phenol_hyd_sub; pfam06099 1042878001335 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 1042878001336 dimerization interface [polypeptide binding]; other site 1042878001337 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 1042878001338 Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain; Region: AAMH_A; cd01057 1042878001339 dimerization interface [polypeptide binding]; other site 1042878001340 putative path to active site cavity [active] 1042878001341 diiron center [ion binding]; other site 1042878001342 Phenol hydroxylase conserved region; Region: Phenol_monoox; pfam04663 1042878001343 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1042878001344 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878001345 catalytic loop [active] 1042878001346 iron binding site [ion binding]; other site 1042878001347 Phenol 2-monooxygenase (phenol hydroxylase) is a flavoprotein monooxygenase, able to use molecular oxygen as a substrate in the microbial degredation of phenol. This protein is encoded by a single gene and uses a tightly bound FAD cofactor in the NAD(P)H...; Region: phenol_2-monooxygenase_like; cd06211 1042878001348 FAD binding pocket [chemical binding]; other site 1042878001349 FAD binding motif [chemical binding]; other site 1042878001350 phosphate binding motif [ion binding]; other site 1042878001351 beta-alpha-beta structure motif; other site 1042878001352 NAD binding pocket [chemical binding]; other site 1042878001353 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878001354 catalytic loop [active] 1042878001355 iron binding site [ion binding]; other site 1042878001356 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 1042878001357 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1042878001358 active site 1042878001359 metal binding site [ion binding]; metal-binding site 1042878001360 C-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_C; cd07243 1042878001361 tetramer interface [polypeptide binding]; other site 1042878001362 active site 1042878001363 Fe binding site [ion binding]; other site 1042878001364 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 1042878001365 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1042878001366 NAD binding site [chemical binding]; other site 1042878001367 catalytic residues [active] 1042878001368 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1042878001369 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1042878001370 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1042878001371 active site 1 [active] 1042878001372 dimer interface [polypeptide binding]; other site 1042878001373 hexamer interface [polypeptide binding]; other site 1042878001374 active site 2 [active] 1042878001375 acetaldehyde dehydrogenase; Validated; Region: PRK08300 1042878001376 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1042878001377 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 1042878001378 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 1042878001379 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 1042878001380 active site 1042878001381 catalytic residues [active] 1042878001382 metal binding site [ion binding]; metal-binding site 1042878001383 DmpG-like communication domain; Region: DmpG_comm; pfam07836 1042878001384 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878001385 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1042878001386 catalytic triad [active] 1042878001387 conserved cis-peptide bond; other site 1042878001388 Beta-lactamase; Region: Beta-lactamase; pfam00144 1042878001389 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1042878001390 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 1042878001391 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 1042878001392 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1042878001393 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1042878001394 dimerization interface [polypeptide binding]; other site 1042878001395 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042878001396 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042878001397 dimer interface [polypeptide binding]; other site 1042878001398 putative CheW interface [polypeptide binding]; other site 1042878001399 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1042878001400 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1042878001401 tetramer interface [polypeptide binding]; other site 1042878001402 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878001403 catalytic residue [active] 1042878001404 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 1042878001405 hypothetical protein; Reviewed; Region: PRK09588 1042878001406 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878001407 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1042878001408 active site 1042878001409 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1042878001410 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1042878001411 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878001412 MarR family; Region: MarR; pfam01047 1042878001413 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 1042878001414 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 1042878001415 dimerization interface [polypeptide binding]; other site 1042878001416 active site 1042878001417 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1042878001418 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1042878001419 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1042878001420 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1042878001421 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1042878001422 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1042878001423 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1042878001424 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 1042878001425 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1042878001426 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 1042878001427 substrate binding site [chemical binding]; other site 1042878001428 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1042878001429 substrate binding site [chemical binding]; other site 1042878001430 ligand binding site [chemical binding]; other site 1042878001431 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042878001432 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 1042878001433 C-terminal domain interface [polypeptide binding]; other site 1042878001434 GSH binding site (G-site) [chemical binding]; other site 1042878001435 dimer interface [polypeptide binding]; other site 1042878001436 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1042878001437 dimer interface [polypeptide binding]; other site 1042878001438 N-terminal domain interface [polypeptide binding]; other site 1042878001439 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1042878001440 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1042878001441 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1042878001442 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878001443 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1042878001444 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878001445 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878001446 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1042878001447 dimerization interface [polypeptide binding]; other site 1042878001448 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878001449 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878001450 active site 1042878001451 Outer membrane efflux protein; Region: OEP; pfam02321 1042878001452 Outer membrane efflux protein; Region: OEP; pfam02321 1042878001453 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042878001454 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1042878001455 E3 interaction surface; other site 1042878001456 lipoyl attachment site [posttranslational modification]; other site 1042878001457 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878001458 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1042878001459 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1042878001460 CsbD-like; Region: CsbD; cl17424 1042878001461 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878001462 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878001463 dimer interface [polypeptide binding]; other site 1042878001464 phosphorylation site [posttranslational modification] 1042878001465 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878001466 ATP binding site [chemical binding]; other site 1042878001467 Mg2+ binding site [ion binding]; other site 1042878001468 G-X-G motif; other site 1042878001469 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1042878001470 active site 1042878001471 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1042878001472 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878001473 DNA-binding site [nucleotide binding]; DNA binding site 1042878001474 hypothetical protein; Validated; Region: PRK07586 1042878001475 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042878001476 PYR/PP interface [polypeptide binding]; other site 1042878001477 dimer interface [polypeptide binding]; other site 1042878001478 TPP binding site [chemical binding]; other site 1042878001479 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 1042878001480 TPP-binding site [chemical binding]; other site 1042878001481 dimer interface [polypeptide binding]; other site 1042878001482 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1042878001483 DUF35 OB-fold domain; Region: DUF35; pfam01796 1042878001484 thiolase; Provisional; Region: PRK06158 1042878001485 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1042878001486 active site 1042878001487 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042878001488 MULE transposase domain; Region: MULE; pfam10551 1042878001489 endo-1,4-D-glucanase; Provisional; Region: PRK11097 1042878001490 Survival protein SurE; Region: SurE; pfam01975 1042878001491 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 1042878001492 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 1042878001493 active site 1042878001494 catalytic residues [active] 1042878001495 metal binding site [ion binding]; metal-binding site 1042878001496 DmpG-like communication domain; Region: DmpG_comm; pfam07836 1042878001497 acetaldehyde dehydrogenase; Validated; Region: PRK08300 1042878001498 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1042878001499 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 1042878001500 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1042878001501 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1042878001502 short chain dehydrogenase; Provisional; Region: PRK07856 1042878001503 classical (c) SDRs; Region: SDR_c; cd05233 1042878001504 NAD(P) binding site [chemical binding]; other site 1042878001505 active site 1042878001506 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 1042878001507 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1042878001508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878001509 NAD(P) binding site [chemical binding]; other site 1042878001510 active site 1042878001511 ketosteroid isomerase: Many biological reactions proceed by enzymatic cleavage of a C-H bond adjacent to carbonyl or a carboxyl group, leading to an enol or a enolate intermediate that is subsequently re-protonated at the same or an adjacent carbon; Region: ketosteroid_isomerase; cd00781 1042878001512 dimer interface [polypeptide binding]; other site 1042878001513 active site/substrate binding site [active] 1042878001514 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878001515 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 1042878001516 putative hydrophobic ligand binding site [chemical binding]; other site 1042878001517 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1042878001518 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878001519 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1042878001520 glycerate dehydrogenase; Provisional; Region: PRK06932 1042878001521 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1042878001522 putative ligand binding site [chemical binding]; other site 1042878001523 putative NAD binding site [chemical binding]; other site 1042878001524 catalytic site [active] 1042878001525 Glycerate kinase family; Region: Gly_kinase; cl00841 1042878001526 Glycerate kinase family; Region: Gly_kinase; cl00841 1042878001527 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878001528 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1042878001529 active site 1042878001530 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1042878001531 active site 1042878001532 catalytic residues [active] 1042878001533 metal binding site [ion binding]; metal-binding site 1042878001534 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878001535 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878001536 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878001537 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878001538 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1042878001539 putative dimerization interface [polypeptide binding]; other site 1042878001540 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878001541 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878001542 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1042878001543 dimerization interface [polypeptide binding]; other site 1042878001544 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878001545 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1042878001546 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1042878001547 metal binding site [ion binding]; metal-binding site 1042878001548 putative dimer interface [polypeptide binding]; other site 1042878001549 glutamine synthetase, type I; Region: GlnA; TIGR00653 1042878001550 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1042878001551 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1042878001552 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878001553 MarR family; Region: MarR_2; pfam12802 1042878001554 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 1042878001555 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1042878001556 MarR family; Region: MarR_2; pfam12802 1042878001557 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878001558 Coenzyme A binding pocket [chemical binding]; other site 1042878001559 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1042878001560 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878001561 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1042878001562 catalytic triad [active] 1042878001563 conserved cis-peptide bond; other site 1042878001564 SnoaL-like domain; Region: SnoaL_4; pfam13577 1042878001565 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878001566 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878001567 DNA binding residues [nucleotide binding] 1042878001568 dimerization interface [polypeptide binding]; other site 1042878001569 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1042878001570 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1042878001571 CysD dimerization site [polypeptide binding]; other site 1042878001572 G1 box; other site 1042878001573 putative GEF interaction site [polypeptide binding]; other site 1042878001574 GTP/Mg2+ binding site [chemical binding]; other site 1042878001575 Switch I region; other site 1042878001576 G2 box; other site 1042878001577 G3 box; other site 1042878001578 Switch II region; other site 1042878001579 G4 box; other site 1042878001580 G5 box; other site 1042878001581 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 1042878001582 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 1042878001583 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 1042878001584 ligand-binding site [chemical binding]; other site 1042878001585 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1042878001586 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1042878001587 Active Sites [active] 1042878001588 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1042878001589 short chain dehydrogenase; Provisional; Region: PRK07890 1042878001590 classical (c) SDRs; Region: SDR_c; cd05233 1042878001591 NAD(P) binding site [chemical binding]; other site 1042878001592 active site 1042878001593 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1042878001594 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1042878001595 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1042878001596 dimerization interface [polypeptide binding]; other site 1042878001597 active site 1042878001598 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1042878001599 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1042878001600 substrate binding pocket [chemical binding]; other site 1042878001601 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1042878001602 classical (c) SDRs; Region: SDR_c; cd05233 1042878001603 NAD(P) binding site [chemical binding]; other site 1042878001604 active site 1042878001605 PAS fold; Region: PAS; pfam00989 1042878001606 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878001607 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878001608 DNA binding residues [nucleotide binding] 1042878001609 dimerization interface [polypeptide binding]; other site 1042878001610 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1042878001611 active site 1042878001612 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1042878001613 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1042878001614 Naphthocyclinone hydroxylase; Region: NcnH; cd01159 1042878001615 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878001616 Flavin binding site [chemical binding]; other site 1042878001617 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 1042878001618 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042878001619 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1042878001620 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1042878001621 hypothetical protein; Validated; Region: PRK07121 1042878001622 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1042878001623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878001624 short chain dehydrogenase; Validated; Region: PRK07069 1042878001625 NAD(P) binding site [chemical binding]; other site 1042878001626 active site 1042878001627 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1042878001628 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1042878001629 FAD binding pocket [chemical binding]; other site 1042878001630 FAD binding motif [chemical binding]; other site 1042878001631 phosphate binding motif [ion binding]; other site 1042878001632 beta-alpha-beta structure motif; other site 1042878001633 NAD(p) ribose binding residues [chemical binding]; other site 1042878001634 NAD binding pocket [chemical binding]; other site 1042878001635 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1042878001636 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878001637 catalytic loop [active] 1042878001638 iron binding site [ion binding]; other site 1042878001639 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 1042878001640 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878001641 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1042878001642 acyl-activating enzyme (AAE) consensus motif; other site 1042878001643 acyl-activating enzyme (AAE) consensus motif; other site 1042878001644 putative AMP binding site [chemical binding]; other site 1042878001645 putative active site [active] 1042878001646 putative CoA binding site [chemical binding]; other site 1042878001647 CoA binding site [chemical binding]; other site 1042878001648 SnoaL-like domain; Region: SnoaL_4; pfam13577 1042878001649 short chain dehydrogenase; Provisional; Region: PRK08303 1042878001650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878001651 NAD(P) binding site [chemical binding]; other site 1042878001652 active site 1042878001653 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 1042878001654 SnoaL-like domain; Region: SnoaL_3; pfam13474 1042878001655 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1042878001656 classical (c) SDRs; Region: SDR_c; cd05233 1042878001657 NAD(P) binding site [chemical binding]; other site 1042878001658 active site 1042878001659 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878001660 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1042878001661 NAD(P) binding site [chemical binding]; other site 1042878001662 active site 1042878001663 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1042878001664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878001665 NAD(P) binding site [chemical binding]; other site 1042878001666 active site 1042878001667 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878001668 classical (c) SDRs; Region: SDR_c; cd05233 1042878001669 NAD(P) binding site [chemical binding]; other site 1042878001670 active site 1042878001671 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878001672 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878001673 DNA binding residues [nucleotide binding] 1042878001674 dimerization interface [polypeptide binding]; other site 1042878001675 EthD domain; Region: EthD; pfam07110 1042878001676 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 1042878001677 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 1042878001678 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 1042878001679 active site 1042878001680 Fe binding site [ion binding]; other site 1042878001681 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1042878001682 Coenzyme A transferase; Region: CoA_trans; cl17247 1042878001683 enoyl-CoA hydratase; Provisional; Region: PRK08290 1042878001684 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878001685 substrate binding site [chemical binding]; other site 1042878001686 oxyanion hole (OAH) forming residues; other site 1042878001687 trimer interface [polypeptide binding]; other site 1042878001688 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1042878001689 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1042878001690 FMN binding site [chemical binding]; other site 1042878001691 substrate binding site [chemical binding]; other site 1042878001692 putative catalytic residue [active] 1042878001693 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878001694 enoyl-CoA hydratase; Provisional; Region: PRK06495 1042878001695 substrate binding site [chemical binding]; other site 1042878001696 oxyanion hole (OAH) forming residues; other site 1042878001697 trimer interface [polypeptide binding]; other site 1042878001698 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878001699 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 1042878001700 FAD binding site [chemical binding]; other site 1042878001701 substrate binding site [chemical binding]; other site 1042878001702 catalytic base [active] 1042878001703 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 1042878001704 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1042878001705 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878001706 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 1042878001707 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878001708 dimer interface [polypeptide binding]; other site 1042878001709 active site 1042878001710 short chain dehydrogenase; Provisional; Region: PRK07791 1042878001711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878001712 NAD(P) binding site [chemical binding]; other site 1042878001713 active site 1042878001714 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878001715 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1042878001716 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1042878001717 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1042878001718 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878001719 active site 1042878001720 short chain dehydrogenase; Provisional; Region: PRK07831 1042878001721 classical (c) SDRs; Region: SDR_c; cd05233 1042878001722 NAD(P) binding site [chemical binding]; other site 1042878001723 active site 1042878001724 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 1042878001725 putative active site [active] 1042878001726 putative catalytic site [active] 1042878001727 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1042878001728 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878001729 dimer interface [polypeptide binding]; other site 1042878001730 active site 1042878001731 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1042878001732 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1042878001733 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1042878001734 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042878001735 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1042878001736 active site 1042878001737 FMN binding site [chemical binding]; other site 1042878001738 substrate binding site [chemical binding]; other site 1042878001739 putative catalytic residue [active] 1042878001740 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042878001741 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1042878001742 iron-sulfur cluster [ion binding]; other site 1042878001743 [2Fe-2S] cluster binding site [ion binding]; other site 1042878001744 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1042878001745 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878001746 NAD(P) binding site [chemical binding]; other site 1042878001747 active site 1042878001748 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1042878001749 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1042878001750 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 1042878001751 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1042878001752 active site 1042878001753 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1042878001754 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 1042878001755 FAD binding site [chemical binding]; other site 1042878001756 substrate binding site [chemical binding]; other site 1042878001757 catalytic base [active] 1042878001758 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1042878001759 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878001760 acyl-activating enzyme (AAE) consensus motif; other site 1042878001761 AMP binding site [chemical binding]; other site 1042878001762 active site 1042878001763 CoA binding site [chemical binding]; other site 1042878001764 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878001765 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042878001766 MULE transposase domain; Region: MULE; pfam10551 1042878001767 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1042878001768 Uncharacterized conserved small protein [Function unknown]; Region: COG5606 1042878001769 non-specific DNA binding site [nucleotide binding]; other site 1042878001770 salt bridge; other site 1042878001771 sequence-specific DNA binding site [nucleotide binding]; other site 1042878001772 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1042878001773 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1042878001774 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1042878001775 active site 2 [active] 1042878001776 active site 1 [active] 1042878001777 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1042878001778 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1042878001779 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878001780 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878001781 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878001782 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878001783 active site 1042878001784 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1042878001785 MgtC family; Region: MgtC; pfam02308 1042878001786 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1042878001787 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878001788 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878001789 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1042878001790 putative dimerization interface [polypeptide binding]; other site 1042878001791 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878001792 NAD(P) binding site [chemical binding]; other site 1042878001793 sorbitol-6-phosphate 2-dehydrogenase; Provisional; Region: PRK06171 1042878001794 active site 1042878001795 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 1042878001796 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1042878001797 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042878001798 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 1042878001799 Walker A/P-loop; other site 1042878001800 ATP binding site [chemical binding]; other site 1042878001801 Q-loop/lid; other site 1042878001802 ABC transporter signature motif; other site 1042878001803 Walker B; other site 1042878001804 D-loop; other site 1042878001805 H-loop/switch region; other site 1042878001806 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1042878001807 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878001808 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878001809 VCBS repeat; Region: VCBS_repeat; TIGR01965 1042878001810 VCBS repeat; Region: VCBS_repeat; TIGR01965 1042878001811 VCBS repeat; Region: VCBS_repeat; TIGR01965 1042878001812 VCBS repeat; Region: VCBS_repeat; TIGR01965 1042878001813 VCBS repeat; Region: VCBS_repeat; TIGR01965 1042878001814 VCBS repeat; Region: VCBS_repeat; TIGR01965 1042878001815 VCBS repeat; Region: VCBS_repeat; TIGR01965 1042878001816 VCBS repeat; Region: VCBS_repeat; TIGR01965 1042878001817 VCBS repeat; Region: VCBS_repeat; TIGR01965 1042878001818 VCBS repeat; Region: VCBS_repeat; TIGR01965 1042878001819 VCBS repeat; Region: VCBS_repeat; TIGR01965 1042878001820 VCBS repeat; Region: VCBS_repeat; TIGR01965 1042878001821 VCBS repeat; Region: VCBS_repeat; TIGR01965 1042878001822 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 1042878001823 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1042878001824 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042878001825 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878001826 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878001827 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878001828 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 1042878001829 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878001830 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 1042878001831 acyl-activating enzyme (AAE) consensus motif; other site 1042878001832 putative AMP binding site [chemical binding]; other site 1042878001833 putative active site [active] 1042878001834 putative CoA binding site [chemical binding]; other site 1042878001835 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878001836 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042878001837 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878001838 substrate binding site [chemical binding]; other site 1042878001839 oxyanion hole (OAH) forming residues; other site 1042878001840 trimer interface [polypeptide binding]; other site 1042878001841 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878001842 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878001843 active site 1042878001844 PrkA family serine protein kinase; Provisional; Region: PRK15455 1042878001845 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1042878001846 hypothetical protein; Provisional; Region: PRK05325 1042878001847 SpoVR family protein; Provisional; Region: PRK11767 1042878001848 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1042878001849 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878001850 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878001851 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878001852 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1042878001853 active site 1042878001854 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878001855 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1042878001856 active site 2 [active] 1042878001857 active site 1 [active] 1042878001858 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878001859 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878001860 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1042878001861 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878001862 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042878001863 dimerization interface [polypeptide binding]; other site 1042878001864 substrate binding pocket [chemical binding]; other site 1042878001865 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878001866 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878001867 DNA binding residues [nucleotide binding] 1042878001868 dimerization interface [polypeptide binding]; other site 1042878001869 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 1042878001870 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1042878001871 oligomeric interface; other site 1042878001872 putative active site [active] 1042878001873 homodimer interface [polypeptide binding]; other site 1042878001874 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1042878001875 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1042878001876 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878001877 NAD(P) binding site [chemical binding]; other site 1042878001878 active site 1042878001879 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1042878001880 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878001881 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1042878001882 acyl-activating enzyme (AAE) consensus motif; other site 1042878001883 acyl-activating enzyme (AAE) consensus motif; other site 1042878001884 putative AMP binding site [chemical binding]; other site 1042878001885 putative active site [active] 1042878001886 putative CoA binding site [chemical binding]; other site 1042878001887 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878001888 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878001889 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878001890 trimer interface [polypeptide binding]; other site 1042878001891 eyelet of channel; other site 1042878001892 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878001893 Acyl transferase domain; Region: Acyl_transf_1; cl08282 1042878001894 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042878001895 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1042878001896 [2Fe-2S] cluster binding site [ion binding]; other site 1042878001897 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1042878001898 hydrophobic ligand binding site; other site 1042878001899 short chain dehydrogenase; Provisional; Region: PRK12939 1042878001900 classical (c) SDRs; Region: SDR_c; cd05233 1042878001901 NAD(P) binding site [chemical binding]; other site 1042878001902 active site 1042878001903 Cupin domain; Region: Cupin_2; pfam07883 1042878001904 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878001905 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878001906 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878001907 short chain dehydrogenase; Provisional; Region: PRK07062 1042878001908 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1042878001909 putative NAD(P) binding site [chemical binding]; other site 1042878001910 putative active site [active] 1042878001911 hypothetical protein; Provisional; Region: PRK07064 1042878001912 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042878001913 PYR/PP interface [polypeptide binding]; other site 1042878001914 dimer interface [polypeptide binding]; other site 1042878001915 TPP binding site [chemical binding]; other site 1042878001916 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042878001917 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 1042878001918 TPP-binding site [chemical binding]; other site 1042878001919 L-aspartate dehydrogenase; Provisional; Region: PRK13303 1042878001920 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1042878001921 Domain of unknown function DUF108; Region: DUF108; pfam01958 1042878001922 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878001923 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 1042878001924 NAD(P) binding site [chemical binding]; other site 1042878001925 catalytic residues [active] 1042878001926 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1042878001927 active site 1042878001928 metal binding site [ion binding]; metal-binding site 1042878001929 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 1042878001930 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878001931 putative active site [active] 1042878001932 putative metal binding site [ion binding]; other site 1042878001933 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1042878001934 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1042878001935 FMN-binding pocket [chemical binding]; other site 1042878001936 flavin binding motif; other site 1042878001937 phosphate binding motif [ion binding]; other site 1042878001938 beta-alpha-beta structure motif; other site 1042878001939 NAD binding pocket [chemical binding]; other site 1042878001940 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878001941 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1042878001942 catalytic loop [active] 1042878001943 iron binding site [ion binding]; other site 1042878001944 benzoate transport; Region: 2A0115; TIGR00895 1042878001945 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878001946 putative substrate translocation pore; other site 1042878001947 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878001948 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878001949 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1042878001950 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1042878001951 tetramer interface [polypeptide binding]; other site 1042878001952 active site 1042878001953 Mg2+/Mn2+ binding site [ion binding]; other site 1042878001954 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1042878001955 active site 1042878001956 iron coordination sites [ion binding]; other site 1042878001957 substrate binding pocket [chemical binding]; other site 1042878001958 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878001959 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878001960 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878001961 dimerization interface [polypeptide binding]; other site 1042878001962 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878001963 MarR family; Region: MarR_2; pfam12802 1042878001964 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878001965 4-hydroxybenzoyl-CoA reductase, alpha subunit; Region: 4hydrxCoA_A; TIGR03194 1042878001966 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042878001967 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878001968 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1042878001969 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1042878001970 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1042878001971 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1042878001972 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042878001973 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 1042878001974 putative hydrophobic ligand binding site [chemical binding]; other site 1042878001975 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878001976 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878001977 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878001978 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878001979 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878001980 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1042878001981 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878001982 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042878001983 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1042878001984 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878001985 active site 1042878001986 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 1042878001987 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1042878001988 active site 1042878001989 acyl-CoA synthetase; Provisional; Region: PRK13391 1042878001990 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878001991 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1042878001992 acyl-activating enzyme (AAE) consensus motif; other site 1042878001993 putative AMP binding site [chemical binding]; other site 1042878001994 putative active site [active] 1042878001995 putative CoA binding site [chemical binding]; other site 1042878001996 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1042878001997 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878001998 DNA binding residues [nucleotide binding] 1042878001999 dimerization interface [polypeptide binding]; other site 1042878002000 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1042878002001 putative FMN binding site [chemical binding]; other site 1042878002002 enoyl-CoA hydratase; Provisional; Region: PRK08260 1042878002003 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878002004 substrate binding site [chemical binding]; other site 1042878002005 oxyanion hole (OAH) forming residues; other site 1042878002006 trimer interface [polypeptide binding]; other site 1042878002007 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1042878002008 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1042878002009 FMN binding site [chemical binding]; other site 1042878002010 substrate binding site [chemical binding]; other site 1042878002011 putative catalytic residue [active] 1042878002012 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1042878002013 CoenzymeA binding site [chemical binding]; other site 1042878002014 subunit interaction site [polypeptide binding]; other site 1042878002015 PHB binding site; other site 1042878002016 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 1042878002017 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878002018 dimer interface [polypeptide binding]; other site 1042878002019 active site 1042878002020 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1042878002021 catalytic core [active] 1042878002022 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 1042878002023 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878002024 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 1042878002025 putative effector binding pocket; other site 1042878002026 putative dimerization interface [polypeptide binding]; other site 1042878002027 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042878002028 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1042878002029 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1042878002030 N-terminal domain interface [polypeptide binding]; other site 1042878002031 dimer interface [polypeptide binding]; other site 1042878002032 substrate binding pocket (H-site) [chemical binding]; other site 1042878002033 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1042878002034 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1042878002035 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878002036 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1042878002037 active site 1042878002038 catalytic site [active] 1042878002039 substrate binding site [chemical binding]; other site 1042878002040 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1042878002041 GIY-YIG motif/motif A; other site 1042878002042 active site 1042878002043 catalytic site [active] 1042878002044 putative DNA binding site [nucleotide binding]; other site 1042878002045 metal binding site [ion binding]; metal-binding site 1042878002046 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1042878002047 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878002048 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1042878002049 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1042878002050 [4Fe-4S] binding site [ion binding]; other site 1042878002051 molybdopterin cofactor binding site; other site 1042878002052 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1042878002053 molybdopterin cofactor binding site; other site 1042878002054 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1042878002055 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1042878002056 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878002057 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 1042878002058 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1042878002059 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878002060 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1042878002061 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1042878002062 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 1042878002063 Predicted transcriptional regulators [Transcription]; Region: COG1733 1042878002064 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1042878002065 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878002066 Coenzyme A binding pocket [chemical binding]; other site 1042878002067 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 1042878002068 EamA-like transporter family; Region: EamA; pfam00892 1042878002069 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1042878002070 metal binding site 2 [ion binding]; metal-binding site 1042878002071 putative DNA binding helix; other site 1042878002072 metal binding site 1 [ion binding]; metal-binding site 1042878002073 dimer interface [polypeptide binding]; other site 1042878002074 structural Zn2+ binding site [ion binding]; other site 1042878002075 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1042878002076 N-terminal plug; other site 1042878002077 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1042878002078 ligand-binding site [chemical binding]; other site 1042878002079 Predicted membrane protein [Function unknown]; Region: COG3503 1042878002080 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042878002081 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1042878002082 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1042878002083 DXD motif; other site 1042878002084 PilZ domain; Region: PilZ; pfam07238 1042878002085 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1042878002086 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878002087 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1042878002088 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1042878002089 Transposase domain (DUF772); Region: DUF772; pfam05598 1042878002090 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1042878002091 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1042878002092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1042878002093 Probable transposase; Region: OrfB_IS605; pfam01385 1042878002094 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878002095 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878002096 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 1042878002097 putative active site [active] 1042878002098 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 1042878002099 nucleoside/Zn binding site; other site 1042878002100 dimer interface [polypeptide binding]; other site 1042878002101 catalytic motif [active] 1042878002102 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1042878002103 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1042878002104 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1042878002105 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878002106 MarR family; Region: MarR_2; cl17246 1042878002107 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1042878002108 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042878002109 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1042878002110 iron-sulfur cluster [ion binding]; other site 1042878002111 [2Fe-2S] cluster binding site [ion binding]; other site 1042878002112 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 1042878002113 putative alpha subunit interface [polypeptide binding]; other site 1042878002114 putative active site [active] 1042878002115 putative substrate binding site [chemical binding]; other site 1042878002116 Fe binding site [ion binding]; other site 1042878002117 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1042878002118 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878002119 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 1042878002120 [2Fe-2S] cluster binding site [ion binding]; other site 1042878002121 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1042878002122 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878002123 TM-ABC transporter signature motif; other site 1042878002124 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878002125 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878002126 TM-ABC transporter signature motif; other site 1042878002127 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878002128 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878002129 Walker A/P-loop; other site 1042878002130 ATP binding site [chemical binding]; other site 1042878002131 Q-loop/lid; other site 1042878002132 ABC transporter signature motif; other site 1042878002133 Walker B; other site 1042878002134 D-loop; other site 1042878002135 H-loop/switch region; other site 1042878002136 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878002137 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878002138 Walker A/P-loop; other site 1042878002139 ATP binding site [chemical binding]; other site 1042878002140 Q-loop/lid; other site 1042878002141 ABC transporter signature motif; other site 1042878002142 Walker B; other site 1042878002143 D-loop; other site 1042878002144 H-loop/switch region; other site 1042878002145 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878002146 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1042878002147 putative ligand binding site [chemical binding]; other site 1042878002148 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878002149 putative substrate translocation pore; other site 1042878002150 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1042878002151 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1042878002152 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1042878002153 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878002154 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042878002155 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1042878002156 N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia. CSHase is involved in one of the two alternative pathways for creatinine degradation to glycine in microorganisms.This...; Region: CSHase; cd01015 1042878002157 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878002158 catalytic triad [active] 1042878002159 substrate binding site [chemical binding]; other site 1042878002160 domain interfaces; other site 1042878002161 conserved cis-peptide bond; other site 1042878002162 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1042878002163 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042878002164 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878002165 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 1042878002166 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1042878002167 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878002168 catalytic loop [active] 1042878002169 iron binding site [ion binding]; other site 1042878002170 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042878002171 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 1042878002172 putative hydrophobic ligand binding site [chemical binding]; other site 1042878002173 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878002174 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878002175 sequence-specific DNA binding site [nucleotide binding]; other site 1042878002176 salt bridge; other site 1042878002177 Cupin domain; Region: Cupin_2; cl17218 1042878002178 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1042878002179 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 1042878002180 substrate-cofactor binding pocket; other site 1042878002181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878002182 catalytic residue [active] 1042878002183 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1042878002184 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 1042878002185 NAD binding site [chemical binding]; other site 1042878002186 homodimer interface [polypeptide binding]; other site 1042878002187 active site 1042878002188 putative substrate binding site [chemical binding]; other site 1042878002189 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1042878002190 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1042878002191 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1042878002192 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 1042878002193 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1042878002194 catalytic residues [active] 1042878002195 central insert; other site 1042878002196 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1042878002197 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1042878002198 heme exporter protein CcmC; Region: ccmC; TIGR01191 1042878002199 CcmB protein; Region: CcmB; cl17444 1042878002200 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1042878002201 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878002202 Walker A/P-loop; other site 1042878002203 ATP binding site [chemical binding]; other site 1042878002204 Q-loop/lid; other site 1042878002205 ABC transporter signature motif; other site 1042878002206 Walker B; other site 1042878002207 D-loop; other site 1042878002208 H-loop/switch region; other site 1042878002209 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1042878002210 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 1042878002211 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 1042878002212 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1042878002213 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1042878002214 [4Fe-4S] binding site [ion binding]; other site 1042878002215 molybdopterin cofactor binding site; other site 1042878002216 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1042878002217 molybdopterin cofactor binding site; other site 1042878002218 NapD protein; Region: NapD; pfam03927 1042878002219 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 1042878002220 transcriptional regulator MalT; Provisional; Region: PRK04841 1042878002221 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1042878002222 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1042878002223 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1042878002224 ligand binding site [chemical binding]; other site 1042878002225 NAD binding site [chemical binding]; other site 1042878002226 tetramer interface [polypeptide binding]; other site 1042878002227 catalytic site [active] 1042878002228 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1042878002229 L-serine binding site [chemical binding]; other site 1042878002230 ACT domain interface; other site 1042878002231 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 1042878002232 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1042878002233 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 1042878002234 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878002235 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1042878002236 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042878002237 dimerization interface [polypeptide binding]; other site 1042878002238 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1042878002239 Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP); Region: HEPD; cd08182 1042878002240 putative active site [active] 1042878002241 metal binding site [ion binding]; metal-binding site 1042878002242 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1042878002243 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878002244 putative substrate translocation pore; other site 1042878002245 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 1042878002246 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 1042878002247 NAD(P) binding site [chemical binding]; other site 1042878002248 catalytic residues [active] 1042878002249 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878002250 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1042878002251 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1042878002252 PhoU domain; Region: PhoU; pfam01895 1042878002253 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1042878002254 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1042878002255 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042878002256 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878002257 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1042878002258 dimerization interface [polypeptide binding]; other site 1042878002259 substrate binding pocket [chemical binding]; other site 1042878002260 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042878002261 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042878002262 ligand binding site [chemical binding]; other site 1042878002263 flexible hinge region; other site 1042878002264 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1042878002265 putative switch regulator; other site 1042878002266 non-specific DNA interactions [nucleotide binding]; other site 1042878002267 DNA binding site [nucleotide binding] 1042878002268 sequence specific DNA binding site [nucleotide binding]; other site 1042878002269 putative cAMP binding site [chemical binding]; other site 1042878002270 aldolase II superfamily protein; Provisional; Region: PRK07044 1042878002271 intersubunit interface [polypeptide binding]; other site 1042878002272 active site 1042878002273 Zn2+ binding site [ion binding]; other site 1042878002274 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1042878002275 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1042878002276 putative ligand binding site [chemical binding]; other site 1042878002277 NAD binding site [chemical binding]; other site 1042878002278 dimerization interface [polypeptide binding]; other site 1042878002279 catalytic site [active] 1042878002280 PhoD-like phosphatase; Region: PhoD; pfam09423 1042878002281 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1042878002282 putative active site [active] 1042878002283 putative metal binding site [ion binding]; other site 1042878002284 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1042878002285 Universal stress protein family; Region: Usp; pfam00582 1042878002286 Ligand Binding Site [chemical binding]; other site 1042878002287 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1042878002288 Ligand Binding Site [chemical binding]; other site 1042878002289 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042878002290 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 1042878002291 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 1042878002292 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878002293 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878002294 dimerization interface [polypeptide binding]; other site 1042878002295 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878002296 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878002297 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042878002298 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878002299 substrate binding site [chemical binding]; other site 1042878002300 oxyanion hole (OAH) forming residues; other site 1042878002301 trimer interface [polypeptide binding]; other site 1042878002302 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878002303 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1042878002304 active site 1042878002305 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1042878002306 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1042878002307 active site 1042878002308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878002309 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878002310 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878002311 eyelet of channel; other site 1042878002312 trimer interface [polypeptide binding]; other site 1042878002313 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 1042878002314 putative hydrophobic ligand binding site [chemical binding]; other site 1042878002315 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878002316 dimerization interface [polypeptide binding]; other site 1042878002317 putative DNA binding site [nucleotide binding]; other site 1042878002318 putative Zn2+ binding site [ion binding]; other site 1042878002319 Cytochrome c; Region: Cytochrom_C; cl11414 1042878002320 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1042878002321 sulfite oxidase; Provisional; Region: PLN00177 1042878002322 Moco binding site; other site 1042878002323 metal coordination site [ion binding]; other site 1042878002324 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1042878002325 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 1042878002326 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042878002327 active site 1042878002328 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1042878002329 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1042878002330 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1042878002331 DNA binding site [nucleotide binding] 1042878002332 domain linker motif; other site 1042878002333 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1042878002334 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1042878002335 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878002336 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1042878002337 dimerization interface [polypeptide binding]; other site 1042878002338 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 1042878002339 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1042878002340 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1042878002341 Na binding site [ion binding]; other site 1042878002342 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1042878002343 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1042878002344 active site 1042878002345 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1042878002346 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1042878002347 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1042878002348 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1042878002349 Beta-lactamase; Region: Beta-lactamase; pfam00144 1042878002350 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1042878002351 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1042878002352 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878002353 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878002354 dimerization interface [polypeptide binding]; other site 1042878002355 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 1042878002356 Cupin domain; Region: Cupin_2; pfam07883 1042878002357 Cupin domain; Region: Cupin_2; cl17218 1042878002358 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878002359 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878002360 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 1042878002361 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1042878002362 C-terminal domain interface [polypeptide binding]; other site 1042878002363 GSH binding site (G-site) [chemical binding]; other site 1042878002364 putative dimer interface [polypeptide binding]; other site 1042878002365 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1042878002366 dimer interface [polypeptide binding]; other site 1042878002367 N-terminal domain interface [polypeptide binding]; other site 1042878002368 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1042878002369 salicylate hydroxylase; Provisional; Region: PRK08163 1042878002370 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042878002371 benzoate transport; Region: 2A0115; TIGR00895 1042878002372 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878002373 putative substrate translocation pore; other site 1042878002374 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878002375 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878002376 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1042878002377 catalytic triad [active] 1042878002378 conserved cis-peptide bond; other site 1042878002379 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1042878002380 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1042878002381 conserved cys residue [active] 1042878002382 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878002383 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878002384 Uncharacterized conserved protein [Function unknown]; Region: COG5649 1042878002385 Domain of unknown function (DU1801); Region: DUF1801; cl17490 1042878002386 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1042878002387 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878002388 membrane-bound complex binding site; other site 1042878002389 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 1042878002390 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878002391 substrate binding pocket [chemical binding]; other site 1042878002392 membrane-bound complex binding site; other site 1042878002393 hinge residues; other site 1042878002394 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 1042878002395 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1042878002396 Walker A/P-loop; other site 1042878002397 ATP binding site [chemical binding]; other site 1042878002398 Q-loop/lid; other site 1042878002399 ABC transporter signature motif; other site 1042878002400 Walker B; other site 1042878002401 D-loop; other site 1042878002402 H-loop/switch region; other site 1042878002403 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042878002404 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878002405 dimer interface [polypeptide binding]; other site 1042878002406 conserved gate region; other site 1042878002407 putative PBP binding loops; other site 1042878002408 ABC-ATPase subunit interface; other site 1042878002409 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1042878002410 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1042878002411 dimer interface [polypeptide binding]; other site 1042878002412 active site 1042878002413 catalytic residue [active] 1042878002414 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; pfam09694 1042878002415 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1042878002416 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878002417 active site 1042878002418 phosphorylation site [posttranslational modification] 1042878002419 intermolecular recognition site; other site 1042878002420 dimerization interface [polypeptide binding]; other site 1042878002421 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878002422 DNA binding site [nucleotide binding] 1042878002423 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1042878002424 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1042878002425 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 1042878002426 Ligand Binding Site [chemical binding]; other site 1042878002427 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1042878002428 GAF domain; Region: GAF_3; pfam13492 1042878002429 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878002430 phosphorylation site [posttranslational modification] 1042878002431 dimer interface [polypeptide binding]; other site 1042878002432 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878002433 ATP binding site [chemical binding]; other site 1042878002434 Mg2+ binding site [ion binding]; other site 1042878002435 G-X-G motif; other site 1042878002436 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1042878002437 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1042878002438 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1042878002439 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1042878002440 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878002441 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878002442 putative substrate translocation pore; other site 1042878002443 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878002444 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878002445 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 1042878002446 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1042878002447 active site 1042878002448 DUF35 OB-fold domain; Region: DUF35; pfam01796 1042878002449 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878002450 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 1042878002451 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1042878002452 acyl-activating enzyme (AAE) consensus motif; other site 1042878002453 acyl-activating enzyme (AAE) consensus motif; other site 1042878002454 putative AMP binding site [chemical binding]; other site 1042878002455 putative active site [active] 1042878002456 putative CoA binding site [chemical binding]; other site 1042878002457 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042878002458 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878002459 NAD(P) binding site [chemical binding]; other site 1042878002460 active site 1042878002461 enoyl-CoA hydratase; Provisional; Region: PRK08252 1042878002462 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878002463 substrate binding site [chemical binding]; other site 1042878002464 oxyanion hole (OAH) forming residues; other site 1042878002465 trimer interface [polypeptide binding]; other site 1042878002466 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1042878002467 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1042878002468 FMN binding site [chemical binding]; other site 1042878002469 substrate binding site [chemical binding]; other site 1042878002470 putative catalytic residue [active] 1042878002471 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878002472 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1042878002473 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 1042878002474 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 1042878002475 DNA binding residues [nucleotide binding] 1042878002476 dimer interface [polypeptide binding]; other site 1042878002477 mercury binding site [ion binding]; other site 1042878002478 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 1042878002479 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878002480 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042878002481 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1042878002482 putative NAD(P) binding site [chemical binding]; other site 1042878002483 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 1042878002484 Predicted membrane protein [Function unknown]; Region: COG2259 1042878002485 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878002486 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878002487 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1042878002488 dimerization interface [polypeptide binding]; other site 1042878002489 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878002490 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878002491 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878002492 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878002493 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1042878002494 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1042878002495 active site 1042878002496 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1042878002497 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1042878002498 acyl-activating enzyme (AAE) consensus motif; other site 1042878002499 putative AMP binding site [chemical binding]; other site 1042878002500 putative active site [active] 1042878002501 putative CoA binding site [chemical binding]; other site 1042878002502 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878002503 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878002504 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878002505 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878002506 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878002507 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878002508 active site 1042878002509 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878002510 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878002511 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042878002512 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878002513 substrate binding site [chemical binding]; other site 1042878002514 oxyanion hole (OAH) forming residues; other site 1042878002515 trimer interface [polypeptide binding]; other site 1042878002516 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878002517 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878002518 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1042878002519 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1042878002520 putative acyl-acceptor binding pocket; other site 1042878002521 transcriptional activator FlhC; Provisional; Region: PRK12860 1042878002522 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1042878002523 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1042878002524 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042878002525 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878002526 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878002527 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1042878002528 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1042878002529 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 1042878002530 active site 1042878002531 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878002532 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878002533 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1042878002534 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1042878002535 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 1042878002536 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1042878002537 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1042878002538 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1042878002539 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1042878002540 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1042878002541 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878002542 DNA-binding site [nucleotide binding]; DNA binding site 1042878002543 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1042878002544 Protein of unknown function (DUF2880); Region: DUF2880; pfam11082 1042878002545 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1042878002546 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; some contain an N-terminal GntR family winged HTH DNA-binding domain; Region: SRPBCC_CalC_Aha1-like_GntR-HTH; cd08893 1042878002547 putative hydrophobic ligand binding site [chemical binding]; other site 1042878002548 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878002549 dimerization interface [polypeptide binding]; other site 1042878002550 putative DNA binding site [nucleotide binding]; other site 1042878002551 putative Zn2+ binding site [ion binding]; other site 1042878002552 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 1042878002553 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1042878002554 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 1042878002555 putative active site [active] 1042878002556 catalytic site [active] 1042878002557 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1042878002558 putative active site [active] 1042878002559 catalytic site [active] 1042878002560 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1042878002561 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1042878002562 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 1042878002563 Predicted small secreted protein [Function unknown]; Region: COG5510 1042878002564 Cupin; Region: Cupin_6; pfam12852 1042878002565 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878002566 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878002567 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878002568 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878002569 active site 1042878002570 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1042878002571 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1042878002572 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1042878002573 putative dehydrogenase; Provisional; Region: PRK10098 1042878002574 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 1042878002575 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 1042878002576 [2Fe-2S] cluster binding site [ion binding]; other site 1042878002577 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1042878002578 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878002579 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878002580 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1042878002581 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1042878002582 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1042878002583 putative molybdopterin cofactor binding site [chemical binding]; other site 1042878002584 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1042878002585 putative molybdopterin cofactor binding site; other site 1042878002586 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1042878002587 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 1042878002588 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 1042878002589 formate dehydrogenase; Provisional; Region: PRK07574 1042878002590 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1042878002591 NAD binding site [chemical binding]; other site 1042878002592 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1042878002593 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1042878002594 G1 box; other site 1042878002595 putative GEF interaction site [polypeptide binding]; other site 1042878002596 GTP/Mg2+ binding site [chemical binding]; other site 1042878002597 Switch I region; other site 1042878002598 G2 box; other site 1042878002599 G3 box; other site 1042878002600 Switch II region; other site 1042878002601 G4 box; other site 1042878002602 G5 box; other site 1042878002603 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1042878002604 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1042878002605 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1042878002606 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1042878002607 antiporter inner membrane protein; Provisional; Region: PRK11670 1042878002608 Domain of unknown function DUF59; Region: DUF59; pfam01883 1042878002609 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 1042878002610 Walker A motif; other site 1042878002611 pyruvate kinase; Provisional; Region: PRK06247 1042878002612 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1042878002613 domain interfaces; other site 1042878002614 active site 1042878002615 PAS domain S-box; Region: sensory_box; TIGR00229 1042878002616 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878002617 putative active site [active] 1042878002618 heme pocket [chemical binding]; other site 1042878002619 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878002620 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878002621 DNA binding residues [nucleotide binding] 1042878002622 dimerization interface [polypeptide binding]; other site 1042878002623 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878002624 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1042878002625 putative ligand binding site [chemical binding]; other site 1042878002626 Putative cyclase; Region: Cyclase; pfam04199 1042878002627 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1042878002628 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1042878002629 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1042878002630 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1042878002631 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878002632 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878002633 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 1042878002634 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878002635 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878002636 dimerization interface [polypeptide binding]; other site 1042878002637 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878002638 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878002639 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878002640 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878002641 active site 1042878002642 putative kissing complex interaction region; other site 1042878002643 putative RNA binding sites [nucleotide binding]; other site 1042878002644 ProQ/FINO family; Region: ProQ; pfam04352 1042878002645 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 1042878002646 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1042878002647 potassium uptake protein; Region: kup; TIGR00794 1042878002648 ribonuclease Z; Provisional; Region: PRK02126 1042878002649 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 1042878002650 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878002651 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878002652 DNA-binding site [nucleotide binding]; DNA binding site 1042878002653 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878002654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878002655 homodimer interface [polypeptide binding]; other site 1042878002656 catalytic residue [active] 1042878002657 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 1042878002658 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1042878002659 inhibitor-cofactor binding pocket; inhibition site 1042878002660 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878002661 catalytic residue [active] 1042878002662 succinic semialdehyde dehydrogenase; Region: PLN02278 1042878002663 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1042878002664 tetramerization interface [polypeptide binding]; other site 1042878002665 NAD(P) binding site [chemical binding]; other site 1042878002666 catalytic residues [active] 1042878002667 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878002668 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1042878002669 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1042878002670 Predicted transcriptional regulators [Transcription]; Region: COG1733 1042878002671 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1042878002672 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1042878002673 active site 1042878002674 homotetramer interface [polypeptide binding]; other site 1042878002675 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1042878002676 active site 1042878002677 homotetramer interface [polypeptide binding]; other site 1042878002678 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878002679 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878002680 putative substrate translocation pore; other site 1042878002681 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878002682 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878002683 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878002684 dimerization interface [polypeptide binding]; other site 1042878002685 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 1042878002686 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 1042878002687 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1042878002688 CoenzymeA binding site [chemical binding]; other site 1042878002689 subunit interaction site [polypeptide binding]; other site 1042878002690 PHB binding site; other site 1042878002691 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042878002692 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878002693 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878002694 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1042878002695 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1042878002696 NADP binding site [chemical binding]; other site 1042878002697 dimer interface [polypeptide binding]; other site 1042878002698 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1042878002699 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1042878002700 substrate binding pocket [chemical binding]; other site 1042878002701 active site 1042878002702 iron coordination sites [ion binding]; other site 1042878002703 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1042878002704 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878002705 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1042878002706 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1042878002707 PhnA protein; Region: PhnA; pfam03831 1042878002708 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878002709 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878002710 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878002711 dimerization interface [polypeptide binding]; other site 1042878002712 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878002713 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878002714 putative substrate translocation pore; other site 1042878002715 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1042878002716 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1042878002717 MlrC C-terminus; Region: MlrC_C; pfam07171 1042878002718 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1042878002719 Cytochrome P450; Region: p450; pfam00067 1042878002720 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1042878002721 Flavodoxin; Region: Flavodoxin_1; pfam00258 1042878002722 These bifunctional proteins fuse N-terminal cytochrome p450 with a cytochrome p450 reductase (CYPOR). NADPH cytochrome p450 reductase serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine...; Region: bifunctional_CYPOR; cd06206 1042878002723 FAD binding pocket [chemical binding]; other site 1042878002724 FAD binding motif [chemical binding]; other site 1042878002725 catalytic residues [active] 1042878002726 NAD binding pocket [chemical binding]; other site 1042878002727 phosphate binding motif [ion binding]; other site 1042878002728 beta-alpha-beta structure motif; other site 1042878002729 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1042878002730 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878002731 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1042878002732 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878002733 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878002734 putative substrate translocation pore; other site 1042878002735 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1042878002736 proposed catalytic triad [active] 1042878002737 active site nucleophile [active] 1042878002738 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1042878002739 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1042878002740 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1042878002741 Citrate transporter; Region: CitMHS; pfam03600 1042878002742 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1042878002743 isocitrate dehydrogenase; Validated; Region: PRK06451 1042878002744 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1042878002745 polyphosphate kinase; Provisional; Region: PRK05443 1042878002746 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1042878002747 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1042878002748 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1042878002749 putative domain interface [polypeptide binding]; other site 1042878002750 putative active site [active] 1042878002751 catalytic site [active] 1042878002752 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1042878002753 putative domain interface [polypeptide binding]; other site 1042878002754 putative active site [active] 1042878002755 catalytic site [active] 1042878002756 Homeodomain-like domain; Region: HTH_23; pfam13384 1042878002757 Winged helix-turn helix; Region: HTH_29; pfam13551 1042878002758 Homeodomain-like domain; Region: HTH_32; pfam13565 1042878002759 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1042878002760 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1042878002761 putative active site [active] 1042878002762 EamA-like transporter family; Region: EamA; pfam00892 1042878002763 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1042878002764 EamA-like transporter family; Region: EamA; pfam00892 1042878002765 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042878002766 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878002767 putative substrate translocation pore; other site 1042878002768 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1042878002769 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1042878002770 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1042878002771 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1042878002772 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1042878002773 D-pathway; other site 1042878002774 Putative ubiquinol binding site [chemical binding]; other site 1042878002775 Low-spin heme (heme b) binding site [chemical binding]; other site 1042878002776 Putative water exit pathway; other site 1042878002777 Binuclear center (heme o3/CuB) [ion binding]; other site 1042878002778 K-pathway; other site 1042878002779 Putative proton exit pathway; other site 1042878002780 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 1042878002781 Subunit I/III interface [polypeptide binding]; other site 1042878002782 Subunit III/IV interface [polypeptide binding]; other site 1042878002783 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1042878002784 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878002785 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1042878002786 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1042878002787 NADP binding site [chemical binding]; other site 1042878002788 dimer interface [polypeptide binding]; other site 1042878002789 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1042878002790 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878002791 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1042878002792 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1042878002793 active site 1042878002794 iron coordination sites [ion binding]; other site 1042878002795 substrate binding pocket [chemical binding]; other site 1042878002796 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042878002797 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878002798 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878002799 FCD domain; Region: FCD; pfam07729 1042878002800 flagellar capping protein; Validated; Region: fliD; PRK08724 1042878002801 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1042878002802 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1042878002803 N-terminal plug; other site 1042878002804 ligand-binding site [chemical binding]; other site 1042878002805 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878002806 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1042878002807 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878002808 Walker A/P-loop; other site 1042878002809 ATP binding site [chemical binding]; other site 1042878002810 Q-loop/lid; other site 1042878002811 ABC transporter signature motif; other site 1042878002812 Walker B; other site 1042878002813 D-loop; other site 1042878002814 H-loop/switch region; other site 1042878002815 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1042878002816 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1042878002817 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1042878002818 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1042878002819 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1042878002820 ligand binding site [chemical binding]; other site 1042878002821 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1042878002822 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1042878002823 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 1042878002824 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 1042878002825 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042878002826 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1042878002827 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1042878002828 dimer interface [polypeptide binding]; other site 1042878002829 Trp docking motif [polypeptide binding]; other site 1042878002830 active site 1042878002831 Cytochrome c; Region: Cytochrom_C; cl11414 1042878002832 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042878002833 MULE transposase domain; Region: MULE; pfam10551 1042878002834 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1042878002835 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878002836 FeS/SAM binding site; other site 1042878002837 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1042878002838 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 1042878002839 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1042878002840 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1042878002841 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1042878002842 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1042878002843 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042878002844 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1042878002845 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878002846 Walker A motif; other site 1042878002847 ATP binding site [chemical binding]; other site 1042878002848 Walker B motif; other site 1042878002849 arginine finger; other site 1042878002850 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878002851 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1042878002852 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042878002853 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878002854 substrate binding pocket [chemical binding]; other site 1042878002855 membrane-bound complex binding site; other site 1042878002856 hinge residues; other site 1042878002857 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1042878002858 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1042878002859 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1042878002860 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1042878002861 DNA Polymerase Y-family; Region: PolY_like; cd03468 1042878002862 active site 1042878002863 DNA binding site [nucleotide binding] 1042878002864 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1042878002865 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1042878002866 active site 1042878002867 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1042878002868 active site 1042878002869 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1042878002870 generic binding surface II; other site 1042878002871 generic binding surface I; other site 1042878002872 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1042878002873 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1042878002874 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1042878002875 putative active site [active] 1042878002876 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1042878002877 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1042878002878 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1042878002879 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1042878002880 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1042878002881 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878002882 NAD(P) binding site [chemical binding]; other site 1042878002883 active site 1042878002884 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 1042878002885 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1042878002886 DNA binding residues [nucleotide binding] 1042878002887 dimer interface [polypeptide binding]; other site 1042878002888 metal binding site [ion binding]; metal-binding site 1042878002889 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 1042878002890 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1042878002891 Walker A/P-loop; other site 1042878002892 ATP binding site [chemical binding]; other site 1042878002893 Q-loop/lid; other site 1042878002894 ABC transporter signature motif; other site 1042878002895 Walker B; other site 1042878002896 D-loop; other site 1042878002897 H-loop/switch region; other site 1042878002898 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 1042878002899 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 1042878002900 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878002901 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878002902 NAD(P) binding site [chemical binding]; other site 1042878002903 active site 1042878002904 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1042878002905 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1042878002906 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1042878002907 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878002908 NAD(P) binding site [chemical binding]; other site 1042878002909 active site 1042878002910 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878002911 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1042878002912 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1042878002913 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042878002914 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878002915 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1042878002916 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1042878002917 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1042878002918 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878002919 catalytic loop [active] 1042878002920 iron binding site [ion binding]; other site 1042878002921 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042878002922 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1042878002923 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878002924 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878002925 homodimer interface [polypeptide binding]; other site 1042878002926 catalytic residue [active] 1042878002927 aromatic amino acid transporter; Provisional; Region: PRK10238 1042878002928 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 1042878002929 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1042878002930 dimer interface [polypeptide binding]; other site 1042878002931 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1042878002932 active site 1042878002933 Fe binding site [ion binding]; other site 1042878002934 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042878002935 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878002936 putative DNA binding site [nucleotide binding]; other site 1042878002937 putative Zn2+ binding site [ion binding]; other site 1042878002938 AsnC family; Region: AsnC_trans_reg; pfam01037 1042878002939 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878002940 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878002941 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1042878002942 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1042878002943 active site 1042878002944 nucleophile elbow; other site 1042878002945 hypothetical protein; Provisional; Region: PRK11239 1042878002946 Protein of unknown function, DUF480; Region: DUF480; pfam04337 1042878002947 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042878002948 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042878002949 ligand binding site [chemical binding]; other site 1042878002950 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1042878002951 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878002952 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878002953 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1042878002954 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1042878002955 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878002956 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878002957 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1042878002958 DNA binding site [nucleotide binding] 1042878002959 active site 1042878002960 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 1042878002961 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1042878002962 SnoaL-like domain; Region: SnoaL_2; pfam12680 1042878002963 hypothetical protein; Provisional; Region: PRK06156 1042878002964 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1042878002965 metal binding site [ion binding]; metal-binding site 1042878002966 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 1042878002967 catalytic triad [active] 1042878002968 dimer interface [polypeptide binding]; other site 1042878002969 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1042878002970 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 1042878002971 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1042878002972 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878002973 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878002974 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1042878002975 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1042878002976 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1042878002977 N-terminal plug; other site 1042878002978 ligand-binding site [chemical binding]; other site 1042878002979 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1042878002980 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1042878002981 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878002982 acyl-activating enzyme (AAE) consensus motif; other site 1042878002983 AMP binding site [chemical binding]; other site 1042878002984 active site 1042878002985 CoA binding site [chemical binding]; other site 1042878002986 BON domain; Region: BON; pfam04972 1042878002987 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1042878002988 BON domain; Region: BON; pfam04972 1042878002989 BON domain; Region: BON; pfam04972 1042878002990 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1042878002991 conserved cys residue [active] 1042878002992 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042878002993 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878002994 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 1042878002995 hypothetical protein; Provisional; Region: PRK07338 1042878002996 metal binding site [ion binding]; metal-binding site 1042878002997 dimer interface [polypeptide binding]; other site 1042878002998 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1042878002999 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1042878003000 putative active site [active] 1042878003001 catalytic site [active] 1042878003002 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1042878003003 putative active site [active] 1042878003004 catalytic site [active] 1042878003005 NMT1/THI5 like; Region: NMT1; pfam09084 1042878003006 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1042878003007 oxidase reductase; Provisional; Region: PTZ00273 1042878003008 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1042878003009 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1042878003010 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1042878003011 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1042878003012 E-class dimer interface [polypeptide binding]; other site 1042878003013 P-class dimer interface [polypeptide binding]; other site 1042878003014 active site 1042878003015 Cu2+ binding site [ion binding]; other site 1042878003016 Zn2+ binding site [ion binding]; other site 1042878003017 transcriptional regulator; Provisional; Region: PRK10632 1042878003018 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878003019 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1042878003020 putative effector binding pocket; other site 1042878003021 putative dimerization interface [polypeptide binding]; other site 1042878003022 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1042878003023 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042878003024 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878003025 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878003026 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1042878003027 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042878003028 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 1042878003029 hydrophobic ligand binding site; other site 1042878003030 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1042878003031 substrate binding site [chemical binding]; other site 1042878003032 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 1042878003033 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 1042878003034 generic binding surface I; other site 1042878003035 generic binding surface II; other site 1042878003036 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1042878003037 putative catalytic site [active] 1042878003038 putative metal binding site [ion binding]; other site 1042878003039 putative phosphate binding site [ion binding]; other site 1042878003040 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1042878003041 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1042878003042 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1042878003043 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1042878003044 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 1042878003045 active site 1042878003046 putative substrate binding pocket [chemical binding]; other site 1042878003047 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1042878003048 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878003049 Walker A/P-loop; other site 1042878003050 ATP binding site [chemical binding]; other site 1042878003051 Q-loop/lid; other site 1042878003052 ABC transporter signature motif; other site 1042878003053 Walker B; other site 1042878003054 D-loop; other site 1042878003055 H-loop/switch region; other site 1042878003056 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1042878003057 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1042878003058 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878003059 Walker A/P-loop; other site 1042878003060 ATP binding site [chemical binding]; other site 1042878003061 Q-loop/lid; other site 1042878003062 ABC transporter signature motif; other site 1042878003063 Walker B; other site 1042878003064 D-loop; other site 1042878003065 H-loop/switch region; other site 1042878003066 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1042878003067 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1042878003068 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878003069 dimer interface [polypeptide binding]; other site 1042878003070 conserved gate region; other site 1042878003071 putative PBP binding loops; other site 1042878003072 ABC-ATPase subunit interface; other site 1042878003073 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1042878003074 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878003075 dimer interface [polypeptide binding]; other site 1042878003076 conserved gate region; other site 1042878003077 putative PBP binding loops; other site 1042878003078 ABC-ATPase subunit interface; other site 1042878003079 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 1042878003080 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1042878003081 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1042878003082 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1042878003083 MlrC C-terminus; Region: MlrC_C; pfam07171 1042878003084 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042878003085 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042878003086 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1042878003087 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878003088 non-specific DNA binding site [nucleotide binding]; other site 1042878003089 salt bridge; other site 1042878003090 sequence-specific DNA binding site [nucleotide binding]; other site 1042878003091 Cupin domain; Region: Cupin_2; pfam07883 1042878003092 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878003093 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878003094 putative substrate translocation pore; other site 1042878003095 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878003096 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878003097 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878003098 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1042878003099 classical (c) SDRs; Region: SDR_c; cd05233 1042878003100 NAD(P) binding site [chemical binding]; other site 1042878003101 active site 1042878003102 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878003103 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878003104 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878003105 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042878003106 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1042878003107 active site 1042878003108 FMN binding site [chemical binding]; other site 1042878003109 substrate binding site [chemical binding]; other site 1042878003110 homotetramer interface [polypeptide binding]; other site 1042878003111 catalytic residue [active] 1042878003112 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878003113 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 1042878003114 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878003115 dimer interface [polypeptide binding]; other site 1042878003116 phosphorylation site [posttranslational modification] 1042878003117 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878003118 ATP binding site [chemical binding]; other site 1042878003119 Mg2+ binding site [ion binding]; other site 1042878003120 G-X-G motif; other site 1042878003121 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1042878003122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878003123 active site 1042878003124 phosphorylation site [posttranslational modification] 1042878003125 intermolecular recognition site; other site 1042878003126 dimerization interface [polypeptide binding]; other site 1042878003127 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878003128 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878003129 active site 1042878003130 phosphorylation site [posttranslational modification] 1042878003131 intermolecular recognition site; other site 1042878003132 dimerization interface [polypeptide binding]; other site 1042878003133 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878003134 DNA binding residues [nucleotide binding] 1042878003135 dimerization interface [polypeptide binding]; other site 1042878003136 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042878003137 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042878003138 ligand binding site [chemical binding]; other site 1042878003139 flexible hinge region; other site 1042878003140 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1042878003141 non-specific DNA interactions [nucleotide binding]; other site 1042878003142 DNA binding site [nucleotide binding] 1042878003143 sequence specific DNA binding site [nucleotide binding]; other site 1042878003144 putative cAMP binding site [chemical binding]; other site 1042878003145 acyl-CoA synthetase; Validated; Region: PRK08162 1042878003146 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1042878003147 acyl-activating enzyme (AAE) consensus motif; other site 1042878003148 putative active site [active] 1042878003149 AMP binding site [chemical binding]; other site 1042878003150 putative CoA binding site [chemical binding]; other site 1042878003151 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 1042878003152 dimerization interface [polypeptide binding]; other site 1042878003153 putative active cleft [active] 1042878003154 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 1042878003155 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1042878003156 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878003157 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878003158 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878003159 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878003160 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878003161 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1042878003162 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 1042878003163 putative active site [active] 1042878003164 Zn binding site [ion binding]; other site 1042878003165 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1042878003166 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1042878003167 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878003168 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1042878003169 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042878003170 dimerization interface [polypeptide binding]; other site 1042878003171 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1042878003172 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1042878003173 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1042878003174 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1042878003175 Uncharacterized conserved protein [Function unknown]; Region: COG3379 1042878003176 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1042878003177 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878003178 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878003179 DNA-binding site [nucleotide binding]; DNA binding site 1042878003180 FCD domain; Region: FCD; pfam07729 1042878003181 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 1042878003182 homodimer interface [polypeptide binding]; other site 1042878003183 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878003184 catalytic residue [active] 1042878003185 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1042878003186 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878003187 putative substrate translocation pore; other site 1042878003188 amidase; Provisional; Region: PRK08137 1042878003189 Amidase; Region: Amidase; cl11426 1042878003190 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878003191 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878003192 putative substrate translocation pore; other site 1042878003193 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878003194 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1042878003195 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1042878003196 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1042878003197 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1042878003198 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1042878003199 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878003200 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878003201 dimerization interface [polypeptide binding]; other site 1042878003202 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878003203 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1042878003204 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1042878003205 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1042878003206 succinic semialdehyde dehydrogenase; Region: PLN02278 1042878003207 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1042878003208 tetramerization interface [polypeptide binding]; other site 1042878003209 NAD(P) binding site [chemical binding]; other site 1042878003210 catalytic residues [active] 1042878003211 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 1042878003212 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042878003213 FAD binding domain; Region: FAD_binding_4; pfam01565 1042878003214 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1042878003215 Predicted transcriptional regulators [Transcription]; Region: COG1695 1042878003216 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1042878003217 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1042878003218 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 1042878003219 FAD binding pocket [chemical binding]; other site 1042878003220 FAD binding motif [chemical binding]; other site 1042878003221 phosphate binding motif [ion binding]; other site 1042878003222 NAD binding pocket [chemical binding]; other site 1042878003223 aminotransferase; Validated; Region: PRK08175 1042878003224 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878003225 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878003226 homodimer interface [polypeptide binding]; other site 1042878003227 catalytic residue [active] 1042878003228 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 1042878003229 Galactose oxidase, central domain; Region: Kelch_3; pfam13415 1042878003230 Kelch motif; Region: Kelch_1; pfam01344 1042878003231 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 1042878003232 Galactose oxidase, central domain; Region: Kelch_3; cl02701 1042878003233 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042878003234 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042878003235 ligand binding site [chemical binding]; other site 1042878003236 flexible hinge region; other site 1042878003237 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1042878003238 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1042878003239 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878003240 substrate binding site [chemical binding]; other site 1042878003241 oxyanion hole (OAH) forming residues; other site 1042878003242 trimer interface [polypeptide binding]; other site 1042878003243 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1042878003244 enoyl-CoA hydratase; Provisional; Region: PRK09076 1042878003245 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878003246 substrate binding site [chemical binding]; other site 1042878003247 oxyanion hole (OAH) forming residues; other site 1042878003248 trimer interface [polypeptide binding]; other site 1042878003249 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1042878003250 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1042878003251 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1042878003252 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1042878003253 tetrameric interface [polypeptide binding]; other site 1042878003254 NAD binding site [chemical binding]; other site 1042878003255 catalytic residues [active] 1042878003256 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878003257 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878003258 active site 1042878003259 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042878003260 Helix-turn-helix domain; Region: HTH_18; pfam12833 1042878003261 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878003262 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 1042878003263 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878003264 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878003265 non-specific DNA binding site [nucleotide binding]; other site 1042878003266 salt bridge; other site 1042878003267 sequence-specific DNA binding site [nucleotide binding]; other site 1042878003268 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042878003269 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878003270 putative substrate translocation pore; other site 1042878003271 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 1042878003272 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878003273 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878003274 non-specific DNA binding site [nucleotide binding]; other site 1042878003275 salt bridge; other site 1042878003276 sequence-specific DNA binding site [nucleotide binding]; other site 1042878003277 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1042878003278 S-formylglutathione hydrolase; Region: PLN02442 1042878003279 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1042878003280 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1042878003281 substrate binding site [chemical binding]; other site 1042878003282 catalytic Zn binding site [ion binding]; other site 1042878003283 NAD binding site [chemical binding]; other site 1042878003284 structural Zn binding site [ion binding]; other site 1042878003285 dimer interface [polypeptide binding]; other site 1042878003286 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 1042878003287 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042878003288 FAD binding domain; Region: FAD_binding_4; pfam01565 1042878003289 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1042878003290 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1042878003291 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1042878003292 nucleotide binding site [chemical binding]; other site 1042878003293 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878003294 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1042878003295 putative substrate translocation pore; other site 1042878003296 TLC ATP/ADP transporter; Region: TLC; cl03940 1042878003297 TLC ATP/ADP transporter; Region: TLC; cl03940 1042878003298 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1042878003299 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1042878003300 active site 1042878003301 catalytic tetrad [active] 1042878003302 GntP family permease; Region: GntP_permease; pfam02447 1042878003303 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1042878003304 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1042878003305 homotrimer interaction site [polypeptide binding]; other site 1042878003306 putative active site [active] 1042878003307 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1042878003308 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 1042878003309 active site 1042878003310 putative substrate binding pocket [chemical binding]; other site 1042878003311 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1042878003312 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1042878003313 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1042878003314 putative active site [active] 1042878003315 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1042878003316 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 1042878003317 dimer interface [polypeptide binding]; other site 1042878003318 active site 1042878003319 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042878003320 substrate binding site [chemical binding]; other site 1042878003321 catalytic residue [active] 1042878003322 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1042878003323 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1042878003324 substrate binding site [chemical binding]; other site 1042878003325 ATP binding site [chemical binding]; other site 1042878003326 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1042878003327 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1042878003328 active site 1042878003329 intersubunit interface [polypeptide binding]; other site 1042878003330 catalytic residue [active] 1042878003331 Predicted small secreted protein [Function unknown]; Region: COG5510 1042878003332 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878003333 I-site; other site 1042878003334 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1042878003335 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1042878003336 Domain of unknown function DUF21; Region: DUF21; pfam01595 1042878003337 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1042878003338 Transporter associated domain; Region: CorC_HlyC; smart01091 1042878003339 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1042878003340 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878003341 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878003342 putative substrate translocation pore; other site 1042878003343 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878003344 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1042878003345 Amidohydrolase; Region: Amidohydro_2; pfam04909 1042878003346 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1042878003347 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878003348 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1042878003349 putative dimerization interface [polypeptide binding]; other site 1042878003350 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878003351 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878003352 non-specific DNA binding site [nucleotide binding]; other site 1042878003353 salt bridge; other site 1042878003354 sequence-specific DNA binding site [nucleotide binding]; other site 1042878003355 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1042878003356 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 1042878003357 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 1042878003358 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1042878003359 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1042878003360 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1042878003361 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 1042878003362 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1042878003363 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1042878003364 Ligand binding site; other site 1042878003365 DXD motif; other site 1042878003366 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878003367 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1042878003368 putative substrate translocation pore; other site 1042878003369 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1042878003370 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1042878003371 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1042878003372 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1042878003373 IHF dimer interface [polypeptide binding]; other site 1042878003374 IHF - DNA interface [nucleotide binding]; other site 1042878003375 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1042878003376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 1042878003377 CreA protein; Region: CreA; pfam05981 1042878003378 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 1042878003379 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1042878003380 active site 1042878003381 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1042878003382 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878003383 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1042878003384 acyl-activating enzyme (AAE) consensus motif; other site 1042878003385 putative AMP binding site [chemical binding]; other site 1042878003386 putative active site [active] 1042878003387 putative CoA binding site [chemical binding]; other site 1042878003388 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1042878003389 classical (c) SDRs; Region: SDR_c; cd05233 1042878003390 NAD(P) binding site [chemical binding]; other site 1042878003391 active site 1042878003392 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 1042878003393 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042878003394 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042878003395 ligand binding site [chemical binding]; other site 1042878003396 flexible hinge region; other site 1042878003397 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 1042878003398 Predicted membrane protein [Function unknown]; Region: COG4539 1042878003399 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878003400 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878003401 ATP binding site [chemical binding]; other site 1042878003402 Mg2+ binding site [ion binding]; other site 1042878003403 G-X-G motif; other site 1042878003404 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042878003405 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878003406 active site 1042878003407 phosphorylation site [posttranslational modification] 1042878003408 intermolecular recognition site; other site 1042878003409 dimerization interface [polypeptide binding]; other site 1042878003410 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878003411 DNA binding site [nucleotide binding] 1042878003412 Predicted membrane protein [Function unknown]; Region: COG3212 1042878003413 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1042878003414 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 1042878003415 IHF dimer interface [polypeptide binding]; other site 1042878003416 IHF - DNA interface [nucleotide binding]; other site 1042878003417 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1042878003418 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1042878003419 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 1042878003420 putative substrate binding pocket [chemical binding]; other site 1042878003421 trimer interface [polypeptide binding]; other site 1042878003422 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042878003423 dimer interface [polypeptide binding]; other site 1042878003424 putative CheW interface [polypeptide binding]; other site 1042878003425 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1042878003426 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 1042878003427 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042878003428 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878003429 metal binding site [ion binding]; metal-binding site 1042878003430 active site 1042878003431 I-site; other site 1042878003432 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042878003433 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878003434 active site 1042878003435 phosphorylation site [posttranslational modification] 1042878003436 intermolecular recognition site; other site 1042878003437 dimerization interface [polypeptide binding]; other site 1042878003438 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878003439 DNA binding site [nucleotide binding] 1042878003440 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1042878003441 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 1042878003442 putative active site [active] 1042878003443 catalytic site [active] 1042878003444 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 1042878003445 putative active site [active] 1042878003446 catalytic site [active] 1042878003447 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878003448 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878003449 WHG domain; Region: WHG; pfam13305 1042878003450 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878003451 active site 1042878003452 DNA binding site [nucleotide binding] 1042878003453 Int/Topo IB signature motif; other site 1042878003454 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1042878003455 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 1042878003456 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1042878003457 RES domain; Region: RES; pfam08808 1042878003458 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1042878003459 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878003460 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1042878003461 acyl-activating enzyme (AAE) consensus motif; other site 1042878003462 acyl-activating enzyme (AAE) consensus motif; other site 1042878003463 putative AMP binding site [chemical binding]; other site 1042878003464 putative active site [active] 1042878003465 putative CoA binding site [chemical binding]; other site 1042878003466 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1042878003467 DEAD_2; Region: DEAD_2; pfam06733 1042878003468 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1042878003469 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1042878003470 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1042878003471 catalytic residues [active] 1042878003472 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878003473 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 1042878003474 putative metal binding site [ion binding]; other site 1042878003475 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878003476 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878003477 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 1042878003478 putative dimerization interface [polypeptide binding]; other site 1042878003479 Cupin domain; Region: Cupin_2; cl17218 1042878003480 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042878003481 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042878003482 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1042878003483 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878003484 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878003485 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1042878003486 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1042878003487 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1042878003488 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878003489 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878003490 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1042878003491 putative dimerization interface [polypeptide binding]; other site 1042878003492 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1042878003493 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878003494 Coenzyme A binding pocket [chemical binding]; other site 1042878003495 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1042878003496 Cytochrome P450; Region: p450; cl12078 1042878003497 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1042878003498 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1042878003499 FMN-binding pocket [chemical binding]; other site 1042878003500 flavin binding motif; other site 1042878003501 phosphate binding motif [ion binding]; other site 1042878003502 beta-alpha-beta structure motif; other site 1042878003503 NAD binding pocket [chemical binding]; other site 1042878003504 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878003505 catalytic loop [active] 1042878003506 iron binding site [ion binding]; other site 1042878003507 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878003508 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1042878003509 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878003510 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878003511 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 1042878003512 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042878003513 active site 1042878003514 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 1042878003515 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878003516 Walker A/P-loop; other site 1042878003517 ATP binding site [chemical binding]; other site 1042878003518 Q-loop/lid; other site 1042878003519 ABC transporter signature motif; other site 1042878003520 Walker B; other site 1042878003521 D-loop; other site 1042878003522 H-loop/switch region; other site 1042878003523 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 1042878003524 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878003525 Walker A/P-loop; other site 1042878003526 ATP binding site [chemical binding]; other site 1042878003527 Q-loop/lid; other site 1042878003528 ABC transporter signature motif; other site 1042878003529 Walker B; other site 1042878003530 D-loop; other site 1042878003531 H-loop/switch region; other site 1042878003532 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1042878003533 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 1042878003534 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 1042878003535 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 1042878003536 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 1042878003537 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 1042878003538 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878003539 DNA-binding site [nucleotide binding]; DNA binding site 1042878003540 UTRA domain; Region: UTRA; pfam07702 1042878003541 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 1042878003542 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1042878003543 AAA domain; Region: AAA_18; pfam13238 1042878003544 active site 1042878003545 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878003546 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 1042878003547 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1042878003548 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878003549 dimer interface [polypeptide binding]; other site 1042878003550 conserved gate region; other site 1042878003551 putative PBP binding loops; other site 1042878003552 ABC-ATPase subunit interface; other site 1042878003553 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 1042878003554 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1042878003555 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1042878003556 Walker A/P-loop; other site 1042878003557 ATP binding site [chemical binding]; other site 1042878003558 Q-loop/lid; other site 1042878003559 ABC transporter signature motif; other site 1042878003560 Walker B; other site 1042878003561 D-loop; other site 1042878003562 H-loop/switch region; other site 1042878003563 short chain dehydrogenase; Provisional; Region: PRK07478 1042878003564 classical (c) SDRs; Region: SDR_c; cd05233 1042878003565 NAD(P) binding site [chemical binding]; other site 1042878003566 active site 1042878003567 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878003568 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878003569 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878003570 putative effector binding pocket; other site 1042878003571 dimerization interface [polypeptide binding]; other site 1042878003572 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042878003573 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878003574 putative DNA binding site [nucleotide binding]; other site 1042878003575 putative Zn2+ binding site [ion binding]; other site 1042878003576 AsnC family; Region: AsnC_trans_reg; pfam01037 1042878003577 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 1042878003578 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 1042878003579 dimer interface [polypeptide binding]; other site 1042878003580 TPP-binding site [chemical binding]; other site 1042878003581 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 1042878003582 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 1042878003583 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1042878003584 Domain of unknown function (DUF305); Region: DUF305; pfam03713 1042878003585 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1042878003586 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1042878003587 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1042878003588 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1042878003589 Chromate transporter; Region: Chromate_transp; pfam02417 1042878003590 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 1042878003591 Cytochrome c; Region: Cytochrom_C; cl11414 1042878003592 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1042878003593 sulfite oxidase; Provisional; Region: PLN00177 1042878003594 Moco binding site; other site 1042878003595 metal coordination site [ion binding]; other site 1042878003596 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 1042878003597 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1042878003598 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 1042878003599 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 1042878003600 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1042878003601 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1042878003602 putative active site [active] 1042878003603 catalytic site [active] 1042878003604 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1042878003605 putative active site [active] 1042878003606 catalytic site [active] 1042878003607 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1042878003608 BON domain; Region: BON; pfam04972 1042878003609 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 1042878003610 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1042878003611 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1042878003612 Di-iron ligands [ion binding]; other site 1042878003613 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1042878003614 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1042878003615 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1042878003616 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1042878003617 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1042878003618 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042878003619 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 1042878003620 ligand binding site [chemical binding]; other site 1042878003621 flexible hinge region; other site 1042878003622 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1042878003623 non-specific DNA interactions [nucleotide binding]; other site 1042878003624 DNA binding site [nucleotide binding] 1042878003625 sequence specific DNA binding site [nucleotide binding]; other site 1042878003626 putative cAMP binding site [chemical binding]; other site 1042878003627 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1042878003628 Putative glucoamylase; Region: Glycoamylase; pfam10091 1042878003629 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1042878003630 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1042878003631 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1042878003632 CsbD-like; Region: CsbD; pfam05532 1042878003633 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1042878003634 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 1042878003635 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 1042878003636 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1042878003637 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1042878003638 GAF domain; Region: GAF; pfam01590 1042878003639 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878003640 Walker A motif; other site 1042878003641 ATP binding site [chemical binding]; other site 1042878003642 Walker B motif; other site 1042878003643 arginine finger; other site 1042878003644 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878003645 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 1042878003646 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1042878003647 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1042878003648 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1042878003649 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1042878003650 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1042878003651 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 1042878003652 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 1042878003653 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1042878003654 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878003655 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1042878003656 acyl-activating enzyme (AAE) consensus motif; other site 1042878003657 acyl-activating enzyme (AAE) consensus motif; other site 1042878003658 putative AMP binding site [chemical binding]; other site 1042878003659 putative active site [active] 1042878003660 putative CoA binding site [chemical binding]; other site 1042878003661 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878003662 ATP binding site [chemical binding]; other site 1042878003663 G-X-G motif; other site 1042878003664 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 1042878003665 Predicted membrane protein [Function unknown]; Region: COG4280 1042878003666 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1042878003667 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1042878003668 Na binding site [ion binding]; other site 1042878003669 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1042878003670 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 1042878003671 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1042878003672 active site 1042878003673 AMP binding site [chemical binding]; other site 1042878003674 homodimer interface [polypeptide binding]; other site 1042878003675 acyl-activating enzyme (AAE) consensus motif; other site 1042878003676 CoA binding site [chemical binding]; other site 1042878003677 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 1042878003678 Phenylacetic acid degradation proteins PaaZ (Escherichia coli) and PaaN (Pseudomonas putida)-like; Region: ALDH_PAD-PaaZ; cd07127 1042878003679 NADP binding site [chemical binding]; other site 1042878003680 catalytic residues [active] 1042878003681 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1042878003682 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1042878003683 FAD binding pocket [chemical binding]; other site 1042878003684 FAD binding motif [chemical binding]; other site 1042878003685 phosphate binding motif [ion binding]; other site 1042878003686 beta-alpha-beta structure motif; other site 1042878003687 NAD(p) ribose binding residues [chemical binding]; other site 1042878003688 NAD binding pocket [chemical binding]; other site 1042878003689 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1042878003690 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878003691 catalytic loop [active] 1042878003692 iron binding site [ion binding]; other site 1042878003693 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1042878003694 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1042878003695 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1042878003696 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1042878003697 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1042878003698 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1042878003699 PaaX-like protein; Region: PaaX; pfam07848 1042878003700 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 1042878003701 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1042878003702 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 1042878003703 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 1042878003704 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878003705 catalytic residue [active] 1042878003706 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1042878003707 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878003708 putative DNA binding site [nucleotide binding]; other site 1042878003709 putative Zn2+ binding site [ion binding]; other site 1042878003710 AsnC family; Region: AsnC_trans_reg; pfam01037 1042878003711 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878003712 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878003713 active site 1042878003714 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1042878003715 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1042878003716 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1042878003717 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 1042878003718 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878003719 dimer interface [polypeptide binding]; other site 1042878003720 active site 1042878003721 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878003722 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878003723 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878003724 active site 1042878003725 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878003726 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878003727 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1042878003728 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878003729 acyl-activating enzyme (AAE) consensus motif; other site 1042878003730 AMP binding site [chemical binding]; other site 1042878003731 active site 1042878003732 CoA binding site [chemical binding]; other site 1042878003733 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878003734 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878003735 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1042878003736 putative dimerization interface [polypeptide binding]; other site 1042878003737 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878003738 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1042878003739 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878003740 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042878003741 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878003742 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1042878003743 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878003744 catalytic loop [active] 1042878003745 iron binding site [ion binding]; other site 1042878003746 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042878003747 cyclase homology domain; Region: CHD; cd07302 1042878003748 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1042878003749 nucleotidyl binding site; other site 1042878003750 metal binding site [ion binding]; metal-binding site 1042878003751 dimer interface [polypeptide binding]; other site 1042878003752 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1042878003753 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1042878003754 phosphopeptide binding site; other site 1042878003755 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1042878003756 Clp amino terminal domain; Region: Clp_N; pfam02861 1042878003757 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878003758 Walker A motif; other site 1042878003759 ATP binding site [chemical binding]; other site 1042878003760 Walker B motif; other site 1042878003761 arginine finger; other site 1042878003762 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878003763 Walker A motif; other site 1042878003764 ATP binding site [chemical binding]; other site 1042878003765 Walker B motif; other site 1042878003766 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1042878003767 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1042878003768 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1042878003769 putative molybdopterin cofactor binding site [chemical binding]; other site 1042878003770 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1042878003771 putative molybdopterin cofactor binding site; other site 1042878003772 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1042878003773 intersubunit interface [polypeptide binding]; other site 1042878003774 active site 1042878003775 zinc binding site [ion binding]; other site 1042878003776 Na+ binding site [ion binding]; other site 1042878003777 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1042878003778 Phosphoglycerate kinase; Region: PGK; pfam00162 1042878003779 substrate binding site [chemical binding]; other site 1042878003780 hinge regions; other site 1042878003781 ADP binding site [chemical binding]; other site 1042878003782 catalytic site [active] 1042878003783 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1042878003784 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1042878003785 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1042878003786 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 1042878003787 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042878003788 motif II; other site 1042878003789 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1042878003790 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 1042878003791 TPP-binding site [chemical binding]; other site 1042878003792 dimer interface [polypeptide binding]; other site 1042878003793 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1042878003794 PYR/PP interface [polypeptide binding]; other site 1042878003795 dimer interface [polypeptide binding]; other site 1042878003796 TPP binding site [chemical binding]; other site 1042878003797 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1042878003798 phosphoribulokinase; Provisional; Region: PRK15453 1042878003799 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1042878003800 AMP binding site [chemical binding]; other site 1042878003801 metal binding site [ion binding]; metal-binding site 1042878003802 active site 1042878003803 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 1042878003804 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1042878003805 substrate binding site [chemical binding]; other site 1042878003806 hexamer interface [polypeptide binding]; other site 1042878003807 metal binding site [ion binding]; metal-binding site 1042878003808 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1042878003809 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042878003810 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 1042878003811 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878003812 Walker A motif; other site 1042878003813 ATP binding site [chemical binding]; other site 1042878003814 Walker B motif; other site 1042878003815 arginine finger; other site 1042878003816 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 1042878003817 multimerization interface [polypeptide binding]; other site 1042878003818 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 1042878003819 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 1042878003820 homodimer interface [polypeptide binding]; other site 1042878003821 active site 1042878003822 heterodimer interface [polypeptide binding]; other site 1042878003823 catalytic residue [active] 1042878003824 metal binding site [ion binding]; metal-binding site 1042878003825 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878003826 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878003827 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 1042878003828 putative dimerization interface [polypeptide binding]; other site 1042878003829 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1042878003830 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042878003831 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1042878003832 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1042878003833 dimer interface [polypeptide binding]; other site 1042878003834 active site 1042878003835 metal binding site [ion binding]; metal-binding site 1042878003836 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1042878003837 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1042878003838 Ligand Binding Site [chemical binding]; other site 1042878003839 Universal stress protein family; Region: Usp; pfam00582 1042878003840 Ligand Binding Site [chemical binding]; other site 1042878003841 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1042878003842 Ligand Binding Site [chemical binding]; other site 1042878003843 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1042878003844 Ligand Binding Site [chemical binding]; other site 1042878003845 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1042878003846 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 1042878003847 putative NAD(P) binding site [chemical binding]; other site 1042878003848 putative substrate binding site [chemical binding]; other site 1042878003849 catalytic Zn binding site [ion binding]; other site 1042878003850 structural Zn binding site [ion binding]; other site 1042878003851 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042878003852 active site 1042878003853 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 1042878003854 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cl00182 1042878003855 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878003856 Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF); Region: PBP1_AmiC_like; cd06331 1042878003857 ligand binding site [chemical binding]; other site 1042878003858 putative transposase OrfB; Reviewed; Region: PHA02517 1042878003859 Integrase core domain; Region: rve; pfam00665 1042878003860 Integrase core domain; Region: rve_3; pfam13683 1042878003861 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042878003862 MULE transposase domain; Region: MULE; pfam10551 1042878003863 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 1042878003864 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042878003865 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878003866 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878003867 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1042878003868 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878003869 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1042878003870 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878003871 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878003872 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878003873 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 1042878003874 Asp-box motif; other site 1042878003875 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 1042878003876 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 1042878003877 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1042878003878 P-loop; other site 1042878003879 Magnesium ion binding site [ion binding]; other site 1042878003880 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1042878003881 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 1042878003882 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1042878003883 DXD motif; other site 1042878003884 PilZ domain; Region: PilZ; pfam07238 1042878003885 cellulose synthase regulator protein; Provisional; Region: PRK11114 1042878003886 endo-1,4-D-glucanase; Provisional; Region: PRK11097 1042878003887 TPR repeat; Region: TPR_11; pfam13414 1042878003888 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042878003889 binding surface 1042878003890 TPR motif; other site 1042878003891 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1042878003892 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1042878003893 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042878003894 TPR motif; other site 1042878003895 binding surface 1042878003896 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 1042878003897 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1042878003898 active site 1042878003899 tetramer interface; other site 1042878003900 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878003901 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878003902 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1042878003903 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1042878003904 putative glycosyl transferase; Provisional; Region: PRK10307 1042878003905 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 1042878003906 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 1042878003907 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 1042878003908 putative trimer interface [polypeptide binding]; other site 1042878003909 putative active site [active] 1042878003910 putative substrate binding site [chemical binding]; other site 1042878003911 putative CoA binding site [chemical binding]; other site 1042878003912 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1042878003913 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1042878003914 putative metal binding site; other site 1042878003915 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1042878003916 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042878003917 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 1042878003918 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 1042878003919 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1042878003920 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1042878003921 NADP binding site [chemical binding]; other site 1042878003922 active site 1042878003923 putative substrate binding site [chemical binding]; other site 1042878003924 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1042878003925 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1042878003926 NADP-binding site; other site 1042878003927 homotetramer interface [polypeptide binding]; other site 1042878003928 substrate binding site [chemical binding]; other site 1042878003929 homodimer interface [polypeptide binding]; other site 1042878003930 active site 1042878003931 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1042878003932 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1042878003933 Substrate binding site; other site 1042878003934 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1042878003935 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 1042878003936 Chain length determinant protein; Region: Wzz; pfam02706 1042878003937 Chain length determinant protein; Region: Wzz; cl15801 1042878003938 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1042878003939 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1042878003940 Nucleotide binding site [chemical binding]; other site 1042878003941 P loop; other site 1042878003942 DTAP/Switch II; other site 1042878003943 Switch I; other site 1042878003944 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1042878003945 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1042878003946 active site 1042878003947 polysaccharide export protein Wza; Provisional; Region: PRK15078 1042878003948 Flagellar L-ring protein; Region: FlgH; cl17277 1042878003949 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1042878003950 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878003951 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042878003952 putative substrate translocation pore; other site 1042878003953 L-lactate permease; Region: Lactate_perm; cl00701 1042878003954 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1042878003955 Cupin domain; Region: Cupin_2; cl17218 1042878003956 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1042878003957 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1042878003958 putative active site [active] 1042878003959 Zn binding site [ion binding]; other site 1042878003960 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1042878003961 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878003962 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878003963 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1042878003964 homotrimer interaction site [polypeptide binding]; other site 1042878003965 putative active site [active] 1042878003966 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1042878003967 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878003968 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878003969 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1042878003970 catalytic triad [active] 1042878003971 dimer interface [polypeptide binding]; other site 1042878003972 conserved cis-peptide bond; other site 1042878003973 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1042878003974 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878003975 catalytic triad [active] 1042878003976 dimer interface [polypeptide binding]; other site 1042878003977 conserved cis-peptide bond; other site 1042878003978 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878003979 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878003980 putative substrate translocation pore; other site 1042878003981 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878003982 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 1042878003983 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1042878003984 [4Fe-4S] binding site [ion binding]; other site 1042878003985 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1042878003986 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1042878003987 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 1042878003988 molybdopterin cofactor binding site; other site 1042878003989 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1042878003990 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 1042878003991 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1042878003992 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1042878003993 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 1042878003994 NnrU protein; Region: NnrU; pfam07298 1042878003995 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1042878003996 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 1042878003997 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1042878003998 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1042878003999 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 1042878004000 SLBB domain; Region: SLBB; pfam10531 1042878004001 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1042878004002 L-aspartate oxidase; Provisional; Region: PRK06175 1042878004003 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 1042878004004 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878004005 catalytic loop [active] 1042878004006 iron binding site [ion binding]; other site 1042878004007 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1042878004008 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 1042878004009 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1042878004010 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1042878004011 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1042878004012 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 1042878004013 transmembrane helices; other site 1042878004014 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042878004015 Serine hydrolase (FSH1); Region: FSH1; pfam03959 1042878004016 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1042878004017 dimerization interface [polypeptide binding]; other site 1042878004018 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878004019 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878004020 dimer interface [polypeptide binding]; other site 1042878004021 phosphorylation site [posttranslational modification] 1042878004022 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878004023 ATP binding site [chemical binding]; other site 1042878004024 Mg2+ binding site [ion binding]; other site 1042878004025 G-X-G motif; other site 1042878004026 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1042878004027 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878004028 active site 1042878004029 phosphorylation site [posttranslational modification] 1042878004030 intermolecular recognition site; other site 1042878004031 dimerization interface [polypeptide binding]; other site 1042878004032 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878004033 Walker A motif; other site 1042878004034 ATP binding site [chemical binding]; other site 1042878004035 Walker B motif; other site 1042878004036 arginine finger; other site 1042878004037 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878004038 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1042878004039 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878004040 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1042878004041 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1042878004042 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1042878004043 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1042878004044 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1042878004045 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1042878004046 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1042878004047 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878004048 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878004049 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1042878004050 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878004051 FeS/SAM binding site; other site 1042878004052 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1042878004053 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1042878004054 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878004055 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878004056 DNA-binding site [nucleotide binding]; DNA binding site 1042878004057 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878004058 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878004059 homodimer interface [polypeptide binding]; other site 1042878004060 catalytic residue [active] 1042878004061 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1042878004062 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 1042878004063 dimer interface [polypeptide binding]; other site 1042878004064 putative functional site; other site 1042878004065 putative MPT binding site; other site 1042878004066 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1042878004067 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 1042878004068 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1042878004069 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1042878004070 putative molybdopterin cofactor binding site [chemical binding]; other site 1042878004071 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1042878004072 putative molybdopterin cofactor binding site; other site 1042878004073 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878004074 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878004075 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878004076 dimerization interface [polypeptide binding]; other site 1042878004077 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1042878004078 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1042878004079 metal binding site [ion binding]; metal-binding site 1042878004080 putative dimer interface [polypeptide binding]; other site 1042878004081 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878004082 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878004083 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 1042878004084 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1042878004085 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1042878004086 Chromate transporter; Region: Chromate_transp; pfam02417 1042878004087 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 1042878004088 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 1042878004089 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878004090 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042878004091 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878004092 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878004093 dimerization interface [polypeptide binding]; other site 1042878004094 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 1042878004095 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 1042878004096 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878004097 putative substrate translocation pore; other site 1042878004098 Fic/DOC family; Region: Fic; pfam02661 1042878004099 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1042878004100 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1042878004101 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 1042878004102 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1042878004103 catalytic residues [active] 1042878004104 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1042878004105 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1042878004106 N-terminal plug; other site 1042878004107 ligand-binding site [chemical binding]; other site 1042878004108 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 1042878004109 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 1042878004110 dimer interface [polypeptide binding]; other site 1042878004111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878004112 catalytic residue [active] 1042878004113 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 1042878004114 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1042878004115 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1042878004116 IucA / IucC family; Region: IucA_IucC; pfam04183 1042878004117 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1042878004118 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1042878004119 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1042878004120 IucA / IucC family; Region: IucA_IucC; pfam04183 1042878004121 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1042878004122 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1042878004123 IucA / IucC family; Region: IucA_IucC; pfam04183 1042878004124 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1042878004125 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1042878004126 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1042878004127 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 1042878004128 dimer interface [polypeptide binding]; other site 1042878004129 active site 1042878004130 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042878004131 catalytic residues [active] 1042878004132 substrate binding site [chemical binding]; other site 1042878004133 xanthine permease; Region: pbuX; TIGR03173 1042878004134 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 1042878004135 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 1042878004136 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1042878004137 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1042878004138 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1042878004139 Q-loop/lid; other site 1042878004140 ABC transporter signature motif; other site 1042878004141 Walker B; other site 1042878004142 D-loop; other site 1042878004143 H-loop/switch region; other site 1042878004144 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1042878004145 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878004146 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878004147 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1042878004148 TM-ABC transporter signature motif; other site 1042878004149 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 1042878004150 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1042878004151 putative ligand binding site [chemical binding]; other site 1042878004152 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1042878004153 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1042878004154 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1042878004155 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1042878004156 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 1042878004157 active site 1042878004158 dimer interface [polypeptide binding]; other site 1042878004159 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 1042878004160 dimer interface [polypeptide binding]; other site 1042878004161 active site 1042878004162 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 1042878004163 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1042878004164 putative substrate binding site [chemical binding]; other site 1042878004165 putative ATP binding site [chemical binding]; other site 1042878004166 Predicted transcriptional regulator [Transcription]; Region: COG4190 1042878004167 MarR family; Region: MarR_2; cl17246 1042878004168 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878004169 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042878004170 putative substrate translocation pore; other site 1042878004171 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042878004172 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1042878004173 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 1042878004174 active site 1042878004175 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042878004176 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878004177 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1042878004178 dimerization interface [polypeptide binding]; other site 1042878004179 substrate binding pocket [chemical binding]; other site 1042878004180 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878004181 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1042878004182 apolar tunnel; other site 1042878004183 heme binding site [chemical binding]; other site 1042878004184 dimerization interface [polypeptide binding]; other site 1042878004185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878004186 NAD(P) binding site [chemical binding]; other site 1042878004187 active site 1042878004188 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 1042878004189 Transcriptional regulator; Region: Rrf2; pfam02082 1042878004190 Transcriptional regulator; Region: Rrf2; cl17282 1042878004191 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1042878004192 putative ABC transporter; Region: ycf24; CHL00085 1042878004193 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1042878004194 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1042878004195 Walker A/P-loop; other site 1042878004196 ATP binding site [chemical binding]; other site 1042878004197 Q-loop/lid; other site 1042878004198 ABC transporter signature motif; other site 1042878004199 Walker B; other site 1042878004200 D-loop; other site 1042878004201 H-loop/switch region; other site 1042878004202 FeS assembly protein SufD; Region: sufD; TIGR01981 1042878004203 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1042878004204 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1042878004205 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1042878004206 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878004207 catalytic residue [active] 1042878004208 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1042878004209 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1042878004210 trimerization site [polypeptide binding]; other site 1042878004211 active site 1042878004212 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 1042878004213 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 1042878004214 [2Fe-2S] cluster binding site [ion binding]; other site 1042878004215 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1042878004216 Double zinc ribbon; Region: DZR; pfam12773 1042878004217 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1042878004218 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1042878004219 cyclase homology domain; Region: CHD; cd07302 1042878004220 nucleotidyl binding site; other site 1042878004221 metal binding site [ion binding]; metal-binding site 1042878004222 dimer interface [polypeptide binding]; other site 1042878004223 AAA ATPase domain; Region: AAA_16; pfam13191 1042878004224 Predicted ATPase [General function prediction only]; Region: COG3899 1042878004225 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1042878004226 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 1042878004227 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1042878004228 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1042878004229 active site 1042878004230 nucleophile elbow; other site 1042878004231 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042878004232 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878004233 metal binding site [ion binding]; metal-binding site 1042878004234 active site 1042878004235 I-site; other site 1042878004236 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878004237 MarR family; Region: MarR_2; pfam12802 1042878004238 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878004239 Sulfatase; Region: Sulfatase; cl17466 1042878004240 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1042878004241 Protein required for attachment to host cells; Region: Host_attach; pfam10116 1042878004242 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1042878004243 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878004244 DNA-binding site [nucleotide binding]; DNA binding site 1042878004245 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1042878004246 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1042878004247 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1042878004248 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1042878004249 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1042878004250 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 1042878004251 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1042878004252 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1042878004253 tetramerization interface [polypeptide binding]; other site 1042878004254 NAD(P) binding site [chemical binding]; other site 1042878004255 catalytic residues [active] 1042878004256 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 1042878004257 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878004258 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1042878004259 putative active site [active] 1042878004260 heme pocket [chemical binding]; other site 1042878004261 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1042878004262 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878004263 putative active site [active] 1042878004264 heme pocket [chemical binding]; other site 1042878004265 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878004266 dimer interface [polypeptide binding]; other site 1042878004267 phosphorylation site [posttranslational modification] 1042878004268 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878004269 ATP binding site [chemical binding]; other site 1042878004270 Mg2+ binding site [ion binding]; other site 1042878004271 G-X-G motif; other site 1042878004272 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1042878004273 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878004274 active site 1042878004275 phosphorylation site [posttranslational modification] 1042878004276 intermolecular recognition site; other site 1042878004277 dimerization interface [polypeptide binding]; other site 1042878004278 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878004279 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1042878004280 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878004281 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878004282 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878004283 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878004284 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042878004285 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 1042878004286 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042878004287 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042878004288 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 1042878004289 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1042878004290 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878004291 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 1042878004292 Erythromycin esterase; Region: Erythro_esteras; pfam05139 1042878004293 BON domain; Region: BON; pfam04972 1042878004294 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1042878004295 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042878004296 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1042878004297 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1042878004298 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 1042878004299 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1042878004300 active site 1042878004301 homodimer interface [polypeptide binding]; other site 1042878004302 catalytic site [active] 1042878004303 acceptor binding site [chemical binding]; other site 1042878004304 trehalose synthase; Region: treS_nterm; TIGR02456 1042878004305 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1042878004306 active site 1042878004307 catalytic site [active] 1042878004308 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1042878004309 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 1042878004310 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1042878004311 glycogen branching enzyme; Provisional; Region: PRK05402 1042878004312 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1042878004313 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1042878004314 active site 1042878004315 catalytic site [active] 1042878004316 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1042878004317 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1042878004318 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1042878004319 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1042878004320 active site 1042878004321 catalytic site [active] 1042878004322 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1042878004323 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1042878004324 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1042878004325 homodimer interface [polypeptide binding]; other site 1042878004326 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1042878004327 active site pocket [active] 1042878004328 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 1042878004329 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1042878004330 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1042878004331 catalytic site [active] 1042878004332 active site 1042878004333 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1042878004334 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 1042878004335 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1042878004336 active site 1042878004337 catalytic site [active] 1042878004338 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1042878004339 BON domain; Region: BON; pfam04972 1042878004340 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1042878004341 putative catalytic site [active] 1042878004342 putative metal binding site [ion binding]; other site 1042878004343 putative phosphate binding site [ion binding]; other site 1042878004344 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1042878004345 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1042878004346 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1042878004347 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1042878004348 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878004349 Walker A/P-loop; other site 1042878004350 ATP binding site [chemical binding]; other site 1042878004351 Q-loop/lid; other site 1042878004352 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1042878004353 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1042878004354 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1042878004355 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1042878004356 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1042878004357 Beta-lactamase; Region: Beta-lactamase; pfam00144 1042878004358 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878004359 MarR family; Region: MarR_2; pfam12802 1042878004360 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 1042878004361 dimerization interface [polypeptide binding]; other site 1042878004362 active site 1042878004363 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042878004364 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1042878004365 AsnC family; Region: AsnC_trans_reg; pfam01037 1042878004366 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1042878004367 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878004368 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 1042878004369 putative dimerization interface [polypeptide binding]; other site 1042878004370 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1042878004371 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 1042878004372 THF binding site; other site 1042878004373 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1042878004374 substrate binding site [chemical binding]; other site 1042878004375 THF binding site; other site 1042878004376 zinc-binding site [ion binding]; other site 1042878004377 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1042878004378 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1042878004379 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1042878004380 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1042878004381 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1042878004382 Muconolactone delta-isomerase; Region: MIase; cl01992 1042878004383 YciI-like protein; Reviewed; Region: PRK12863 1042878004384 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1042878004385 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1042878004386 nudix motif; other site 1042878004387 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042878004388 putative lipoprotein/autotransporter domain-containing protein; Provisional; Region: PRK14849 1042878004389 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042878004390 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878004391 metal binding site [ion binding]; metal-binding site 1042878004392 active site 1042878004393 I-site; other site 1042878004394 cytosine deaminase; Validated; Region: PRK07572 1042878004395 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1042878004396 active site 1042878004397 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1042878004398 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878004399 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1042878004400 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042878004401 active site 1042878004402 Protein of unknown function (DUF1688); Region: DUF1688; pfam07958 1042878004403 hypothetical protein; Validated; Region: PRK07198 1042878004404 GTP cyclohydrolase N terminal; Region: GTP_CH_N; pfam12471 1042878004405 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 1042878004406 dimerization interface [polypeptide binding]; other site 1042878004407 active site 1042878004408 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1042878004409 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878004410 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1042878004411 DNA-binding site [nucleotide binding]; DNA binding site 1042878004412 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1042878004413 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 1042878004414 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1042878004415 tetramer interface [polypeptide binding]; other site 1042878004416 active site 1042878004417 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878004418 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1042878004419 Class II fumarases; Region: Fumarase_classII; cd01362 1042878004420 active site 1042878004421 tetramer interface [polypeptide binding]; other site 1042878004422 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042878004423 FAD binding domain; Region: FAD_binding_4; pfam01565 1042878004424 Berberine and berberine like; Region: BBE; pfam08031 1042878004425 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 1042878004426 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 1042878004427 AAA ATPase domain; Region: AAA_16; pfam13191 1042878004428 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 1042878004429 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1042878004430 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1042878004431 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1042878004432 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1042878004433 Walker A/P-loop; other site 1042878004434 ATP binding site [chemical binding]; other site 1042878004435 Q-loop/lid; other site 1042878004436 ABC transporter signature motif; other site 1042878004437 Walker B; other site 1042878004438 D-loop; other site 1042878004439 H-loop/switch region; other site 1042878004440 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1042878004441 metal ion-dependent adhesion site (MIDAS); other site 1042878004442 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1042878004443 MoxR-like ATPases [General function prediction only]; Region: COG0714 1042878004444 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878004445 Walker A motif; other site 1042878004446 ATP binding site [chemical binding]; other site 1042878004447 Walker B motif; other site 1042878004448 arginine finger; other site 1042878004449 Protein of unknown function DUF58; Region: DUF58; pfam01882 1042878004450 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1042878004451 metal ion-dependent adhesion site (MIDAS); other site 1042878004452 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878004453 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878004454 trimer interface [polypeptide binding]; other site 1042878004455 eyelet of channel; other site 1042878004456 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1042878004457 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878004458 ATP binding site [chemical binding]; other site 1042878004459 Walker A motif; other site 1042878004460 Walker B motif; other site 1042878004461 arginine finger; other site 1042878004462 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1042878004463 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042878004464 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1042878004465 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042878004466 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878004467 substrate binding pocket [chemical binding]; other site 1042878004468 membrane-bound complex binding site; other site 1042878004469 hinge residues; other site 1042878004470 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1042878004471 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1042878004472 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1042878004473 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 1042878004474 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1042878004475 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1042878004476 inhibitor-cofactor binding pocket; inhibition site 1042878004477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878004478 catalytic residue [active] 1042878004479 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1042878004480 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1042878004481 Ligand binding site; other site 1042878004482 Putative Catalytic site; other site 1042878004483 DXD motif; other site 1042878004484 putative formyltransferase; Provisional; Region: PRK06988 1042878004485 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1042878004486 active site 1042878004487 substrate binding site [chemical binding]; other site 1042878004488 cosubstrate binding site; other site 1042878004489 catalytic site [active] 1042878004490 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 1042878004491 active site 1042878004492 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 1042878004493 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 1042878004494 NAD binding site [chemical binding]; other site 1042878004495 substrate binding site [chemical binding]; other site 1042878004496 active site 1042878004497 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 1042878004498 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1042878004499 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1042878004500 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 1042878004501 metal-binding site [ion binding] 1042878004502 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1042878004503 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1042878004504 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1042878004505 dimer interface [polypeptide binding]; other site 1042878004506 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1042878004507 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878004508 dimer interface [polypeptide binding]; other site 1042878004509 phosphorylation site [posttranslational modification] 1042878004510 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878004511 ATP binding site [chemical binding]; other site 1042878004512 Mg2+ binding site [ion binding]; other site 1042878004513 G-X-G motif; other site 1042878004514 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1042878004515 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878004516 active site 1042878004517 phosphorylation site [posttranslational modification] 1042878004518 intermolecular recognition site; other site 1042878004519 dimerization interface [polypeptide binding]; other site 1042878004520 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878004521 DNA binding site [nucleotide binding] 1042878004522 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1042878004523 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1042878004524 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07819 1042878004525 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042878004526 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042878004527 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878004528 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878004529 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1042878004530 putative dimerization interface [polypeptide binding]; other site 1042878004531 HipA N-terminal domain; Region: couple_hipA; TIGR03071 1042878004532 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1042878004533 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1042878004534 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1042878004535 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878004536 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878004537 non-specific DNA binding site [nucleotide binding]; other site 1042878004538 salt bridge; other site 1042878004539 sequence-specific DNA binding site [nucleotide binding]; other site 1042878004540 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1042878004541 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1042878004542 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 1042878004543 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1042878004544 Ligand binding site; other site 1042878004545 Putative Catalytic site; other site 1042878004546 DXD motif; other site 1042878004547 acyl carrier protein; Provisional; Region: PRK09184 1042878004548 Predicted membrane protein [Function unknown]; Region: COG4648 1042878004549 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1042878004550 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878004551 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878004552 acyl-activating enzyme (AAE) consensus motif; other site 1042878004553 acyl-activating enzyme (AAE) consensus motif; other site 1042878004554 AMP binding site [chemical binding]; other site 1042878004555 active site 1042878004556 CoA binding site [chemical binding]; other site 1042878004557 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1042878004558 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1042878004559 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1042878004560 putative acyl-acceptor binding pocket; other site 1042878004561 Predicted exporter [General function prediction only]; Region: COG4258 1042878004562 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1042878004563 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1042878004564 NodB motif; other site 1042878004565 active site 1042878004566 catalytic site [active] 1042878004567 metal binding site [ion binding]; metal-binding site 1042878004568 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 1042878004569 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1042878004570 dimer interface [polypeptide binding]; other site 1042878004571 active site 1042878004572 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 1042878004573 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 1042878004574 putative active site 1 [active] 1042878004575 fumarylacetoacetase; Region: PLN02856 1042878004576 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 1042878004577 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878004578 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1042878004579 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878004580 sequence-specific DNA binding site [nucleotide binding]; other site 1042878004581 salt bridge; other site 1042878004582 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878004583 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878004584 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1042878004585 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 1042878004586 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 1042878004587 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 1042878004588 acyl-activating enzyme (AAE) consensus motif; other site 1042878004589 putative AMP binding site [chemical binding]; other site 1042878004590 putative active site [active] 1042878004591 putative CoA binding site [chemical binding]; other site 1042878004592 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 1042878004593 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878004594 active site 1042878004595 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878004596 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1042878004597 substrate binding site [chemical binding]; other site 1042878004598 oxyanion hole (OAH) forming residues; other site 1042878004599 trimer interface [polypeptide binding]; other site 1042878004600 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase; Region: benzo_BadH; TIGR03206 1042878004601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878004602 NAD(P) binding site [chemical binding]; other site 1042878004603 active site 1042878004604 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878004605 MarR family; Region: MarR_2; pfam12802 1042878004606 GYD domain; Region: GYD; pfam08734 1042878004607 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1042878004608 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1042878004609 putative NAD(P) binding site [chemical binding]; other site 1042878004610 dimer interface [polypeptide binding]; other site 1042878004611 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1042878004612 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878004613 catalytic loop [active] 1042878004614 iron binding site [ion binding]; other site 1042878004615 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1042878004616 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 1042878004617 [4Fe-4S] binding site [ion binding]; other site 1042878004618 molybdopterin cofactor binding site; other site 1042878004619 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 1042878004620 molybdopterin cofactor binding site; other site 1042878004621 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1042878004622 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 1042878004623 putative dimer interface [polypeptide binding]; other site 1042878004624 [2Fe-2S] cluster binding site [ion binding]; other site 1042878004625 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1042878004626 SLBB domain; Region: SLBB; pfam10531 1042878004627 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1042878004628 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 1042878004629 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878004630 putative substrate translocation pore; other site 1042878004631 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878004632 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878004633 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1042878004634 putative dimerization interface [polypeptide binding]; other site 1042878004635 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878004636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878004637 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 1042878004638 putative dimerization interface [polypeptide binding]; other site 1042878004639 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878004640 acyl-CoA synthetase; Validated; Region: PRK06188 1042878004641 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878004642 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1042878004643 acyl-activating enzyme (AAE) consensus motif; other site 1042878004644 acyl-activating enzyme (AAE) consensus motif; other site 1042878004645 putative AMP binding site [chemical binding]; other site 1042878004646 putative active site [active] 1042878004647 putative CoA binding site [chemical binding]; other site 1042878004648 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878004649 PAS domain; Region: PAS_9; pfam13426 1042878004650 putative active site [active] 1042878004651 heme pocket [chemical binding]; other site 1042878004652 formyl-coenzyme A transferase; Provisional; Region: PRK05398 1042878004653 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878004654 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 1042878004655 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042878004656 PYR/PP interface [polypeptide binding]; other site 1042878004657 dimer interface [polypeptide binding]; other site 1042878004658 TPP binding site [chemical binding]; other site 1042878004659 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042878004660 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 1042878004661 TPP-binding site; other site 1042878004662 dimer interface [polypeptide binding]; other site 1042878004663 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 1042878004664 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878004665 putative substrate translocation pore; other site 1042878004666 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 1042878004667 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1042878004668 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 1042878004669 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1042878004670 ligand binding site [chemical binding]; other site 1042878004671 homodimer interface [polypeptide binding]; other site 1042878004672 NAD(P) binding site [chemical binding]; other site 1042878004673 trimer interface B [polypeptide binding]; other site 1042878004674 trimer interface A [polypeptide binding]; other site 1042878004675 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1042878004676 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 1042878004677 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 1042878004678 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878004679 formyl-coenzyme A transferase; Provisional; Region: PRK05398 1042878004680 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878004681 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878004682 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878004683 DNA-binding site [nucleotide binding]; DNA binding site 1042878004684 FCD domain; Region: FCD; pfam07729 1042878004685 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1042878004686 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1042878004687 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1042878004688 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1042878004689 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 1042878004690 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 1042878004691 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878004692 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878004693 DNA-binding site [nucleotide binding]; DNA binding site 1042878004694 FCD domain; Region: FCD; pfam07729 1042878004695 EamA-like transporter family; Region: EamA; pfam00892 1042878004696 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1042878004697 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 1042878004698 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1042878004699 conserved cys residue [active] 1042878004700 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1042878004701 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042878004702 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1042878004703 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1042878004704 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1042878004705 carboxyltransferase (CT) interaction site; other site 1042878004706 biotinylation site [posttranslational modification]; other site 1042878004707 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 1042878004708 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1042878004709 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1042878004710 hypothetical protein; Provisional; Region: PRK05463 1042878004711 benzoate transport; Region: 2A0115; TIGR00895 1042878004712 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878004713 putative substrate translocation pore; other site 1042878004714 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878004715 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878004716 DNA-binding site [nucleotide binding]; DNA binding site 1042878004717 FCD domain; Region: FCD; pfam07729 1042878004718 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1042878004719 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1042878004720 FMN binding site [chemical binding]; other site 1042878004721 substrate binding site [chemical binding]; other site 1042878004722 putative catalytic residue [active] 1042878004723 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1042878004724 Putative amidotransferase; Region: DUF4066; pfam13278 1042878004725 conserved cys residue [active] 1042878004726 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878004727 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878004728 DNA binding residues [nucleotide binding] 1042878004729 dimerization interface [polypeptide binding]; other site 1042878004730 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1042878004731 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1042878004732 protein binding site [polypeptide binding]; other site 1042878004733 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 1042878004734 putative FMN binding site [chemical binding]; other site 1042878004735 mercuric reductase; Validated; Region: PRK06370 1042878004736 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878004737 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1042878004738 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1042878004739 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878004740 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878004741 dimerization interface [polypeptide binding]; other site 1042878004742 short chain dehydrogenase; Provisional; Region: PRK06500 1042878004743 classical (c) SDRs; Region: SDR_c; cd05233 1042878004744 NAD(P) binding site [chemical binding]; other site 1042878004745 active site 1042878004746 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1042878004747 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 1042878004748 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1042878004749 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1042878004750 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 1042878004751 putative active site [active] 1042878004752 putative catalytic site [active] 1042878004753 Predicted transcriptional regulators [Transcription]; Region: COG1733 1042878004754 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1042878004755 enoyl-CoA hydratase; Provisional; Region: PRK06688 1042878004756 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878004757 substrate binding site [chemical binding]; other site 1042878004758 oxyanion hole (OAH) forming residues; other site 1042878004759 trimer interface [polypeptide binding]; other site 1042878004760 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878004761 MarR family; Region: MarR_2; pfam12802 1042878004762 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042878004763 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878004764 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878004765 putative substrate translocation pore; other site 1042878004766 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878004767 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1042878004768 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878004769 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878004770 Predicted transcriptional regulators [Transcription]; Region: COG1733 1042878004771 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1042878004772 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042878004773 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1042878004774 dimer interface [polypeptide binding]; other site 1042878004775 phosphorylation site [posttranslational modification] 1042878004776 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878004777 ATP binding site [chemical binding]; other site 1042878004778 Mg2+ binding site [ion binding]; other site 1042878004779 G-X-G motif; other site 1042878004780 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1042878004781 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878004782 active site 1042878004783 phosphorylation site [posttranslational modification] 1042878004784 intermolecular recognition site; other site 1042878004785 dimerization interface [polypeptide binding]; other site 1042878004786 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878004787 DNA binding site [nucleotide binding] 1042878004788 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042878004789 classical (c) SDRs; Region: SDR_c; cd05233 1042878004790 NAD(P) binding site [chemical binding]; other site 1042878004791 active site 1042878004792 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878004793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878004794 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878004795 putative effector binding pocket; other site 1042878004796 dimerization interface [polypeptide binding]; other site 1042878004797 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1042878004798 homotrimer interaction site [polypeptide binding]; other site 1042878004799 putative active site [active] 1042878004800 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1042878004801 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1042878004802 conserved cys residue [active] 1042878004803 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878004804 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1042878004805 classical (c) SDRs; Region: SDR_c; cd05233 1042878004806 NAD(P) binding site [chemical binding]; other site 1042878004807 active site 1042878004808 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1042878004809 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1042878004810 DNA binding site [nucleotide binding] 1042878004811 domain linker motif; other site 1042878004812 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1042878004813 dimerization interface [polypeptide binding]; other site 1042878004814 ligand binding site [chemical binding]; other site 1042878004815 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878004816 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878004817 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878004818 trimer interface [polypeptide binding]; other site 1042878004819 eyelet of channel; other site 1042878004820 Cupin domain; Region: Cupin_2; pfam07883 1042878004821 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042878004822 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1042878004823 NAD(P) binding site [chemical binding]; other site 1042878004824 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1042878004825 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042878004826 classical (c) SDRs; Region: SDR_c; cd05233 1042878004827 NAD(P) binding site [chemical binding]; other site 1042878004828 active site 1042878004829 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1042878004830 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 1042878004831 active site 1042878004832 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1042878004833 Cupin; Region: Cupin_6; pfam12852 1042878004834 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878004835 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878004836 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878004837 short chain dehydrogenase; Provisional; Region: PRK06179 1042878004838 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1042878004839 NADP binding site [chemical binding]; other site 1042878004840 active site 1042878004841 steroid binding site; other site 1042878004842 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1042878004843 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1042878004844 DNA binding site [nucleotide binding] 1042878004845 domain linker motif; other site 1042878004846 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1042878004847 putative dimerization interface [polypeptide binding]; other site 1042878004848 putative ligand binding site [chemical binding]; other site 1042878004849 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878004850 substrate binding pocket [chemical binding]; other site 1042878004851 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042878004852 membrane-bound complex binding site; other site 1042878004853 hinge residues; other site 1042878004854 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042878004855 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878004856 dimer interface [polypeptide binding]; other site 1042878004857 conserved gate region; other site 1042878004858 ABC-ATPase subunit interface; other site 1042878004859 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878004860 dimer interface [polypeptide binding]; other site 1042878004861 conserved gate region; other site 1042878004862 putative PBP binding loops; other site 1042878004863 ABC-ATPase subunit interface; other site 1042878004864 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042878004865 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042878004866 Walker A/P-loop; other site 1042878004867 ATP binding site [chemical binding]; other site 1042878004868 Q-loop/lid; other site 1042878004869 ABC transporter signature motif; other site 1042878004870 Walker B; other site 1042878004871 D-loop; other site 1042878004872 H-loop/switch region; other site 1042878004873 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1042878004874 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1042878004875 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1042878004876 substrate binding site [chemical binding]; other site 1042878004877 ATP binding site [chemical binding]; other site 1042878004878 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 1042878004879 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1042878004880 dimerization interface [polypeptide binding]; other site 1042878004881 ligand binding site [chemical binding]; other site 1042878004882 NADP binding site [chemical binding]; other site 1042878004883 catalytic site [active] 1042878004884 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1042878004885 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1042878004886 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1042878004887 shikimate binding site; other site 1042878004888 NAD(P) binding site [chemical binding]; other site 1042878004889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878004890 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042878004891 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878004892 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878004893 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042878004894 dimerization interface [polypeptide binding]; other site 1042878004895 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1042878004896 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1042878004897 phosphate binding site [ion binding]; other site 1042878004898 hypothetical protein; Validated; Region: PRK06201 1042878004899 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1042878004900 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1042878004901 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1042878004902 ligand binding site [chemical binding]; other site 1042878004903 NAD binding site [chemical binding]; other site 1042878004904 dimerization interface [polypeptide binding]; other site 1042878004905 catalytic site [active] 1042878004906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878004907 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1042878004908 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878004909 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 1042878004910 substrate binding pocket [chemical binding]; other site 1042878004911 dimerization interface [polypeptide binding]; other site 1042878004912 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042878004913 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1042878004914 iron-sulfur cluster [ion binding]; other site 1042878004915 [2Fe-2S] cluster binding site [ion binding]; other site 1042878004916 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 1042878004917 alpha subunit interface [polypeptide binding]; other site 1042878004918 active site 1042878004919 substrate binding site [chemical binding]; other site 1042878004920 Fe binding site [ion binding]; other site 1042878004921 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1042878004922 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1042878004923 FMN-binding pocket [chemical binding]; other site 1042878004924 flavin binding motif; other site 1042878004925 phosphate binding motif [ion binding]; other site 1042878004926 beta-alpha-beta structure motif; other site 1042878004927 NAD binding pocket [chemical binding]; other site 1042878004928 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878004929 catalytic loop [active] 1042878004930 iron binding site [ion binding]; other site 1042878004931 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878004932 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878004933 active site 1042878004934 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1042878004935 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1042878004936 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1042878004937 active site 2 [active] 1042878004938 active site 1 [active] 1042878004939 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878004940 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878004941 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878004942 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878004943 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1042878004944 putative dimerization interface [polypeptide binding]; other site 1042878004945 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878004946 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 1042878004947 NAD(P) binding site [chemical binding]; other site 1042878004948 catalytic residues [active] 1042878004949 Thiamine pyrophosphate (TPP) family, ComE subfamily, TPP-binding module; composed of proteins similar to Methanococcus jannaschii sulfopyruvate decarboxylase beta subunit (ComE). M. jannaschii sulfopyruvate decarboxylase (ComDE) is a dodecamer of six...; Region: TPP_ComE; cd03372 1042878004950 sulfopyruvate decarboxylase, beta subunit; Region: sulfopy_beta; TIGR03846 1042878004951 TPP-binding site; other site 1042878004952 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042878004953 PYR/PP interface [polypeptide binding]; other site 1042878004954 dimer interface [polypeptide binding]; other site 1042878004955 TPP binding site [chemical binding]; other site 1042878004956 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 1042878004957 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878004958 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1042878004959 putative dimerization interface [polypeptide binding]; other site 1042878004960 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878004961 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878004962 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878004963 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1042878004964 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878004965 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1042878004966 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878004967 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1042878004968 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878004969 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1042878004970 active site 1042878004971 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042878004972 FAD binding domain; Region: FAD_binding_4; pfam01565 1042878004973 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1042878004974 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1042878004975 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1042878004976 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878004977 Walker A/P-loop; other site 1042878004978 ATP binding site [chemical binding]; other site 1042878004979 Q-loop/lid; other site 1042878004980 ABC transporter signature motif; other site 1042878004981 Walker B; other site 1042878004982 D-loop; other site 1042878004983 H-loop/switch region; other site 1042878004984 TOBE domain; Region: TOBE_2; pfam08402 1042878004985 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1042878004986 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878004987 dimer interface [polypeptide binding]; other site 1042878004988 conserved gate region; other site 1042878004989 putative PBP binding loops; other site 1042878004990 ABC-ATPase subunit interface; other site 1042878004991 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1042878004992 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878004993 dimer interface [polypeptide binding]; other site 1042878004994 conserved gate region; other site 1042878004995 putative PBP binding loops; other site 1042878004996 ABC-ATPase subunit interface; other site 1042878004997 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1042878004998 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1042878004999 inhibitor site; inhibition site 1042878005000 active site 1042878005001 dimer interface [polypeptide binding]; other site 1042878005002 catalytic residue [active] 1042878005003 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1042878005004 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1042878005005 phosphate binding site [ion binding]; other site 1042878005006 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878005007 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878005008 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878005009 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1042878005010 putative uracil binding site [chemical binding]; other site 1042878005011 putative active site [active] 1042878005012 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878005013 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1042878005014 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1042878005015 MlrC C-terminus; Region: MlrC_C; pfam07171 1042878005016 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878005017 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878005018 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878005019 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042878005020 dimerization interface [polypeptide binding]; other site 1042878005021 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878005022 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1042878005023 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878005024 choline dehydrogenase; Validated; Region: PRK02106 1042878005025 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878005026 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1042878005027 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042878005028 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878005029 putative substrate translocation pore; other site 1042878005030 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878005031 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878005032 DNA-binding site [nucleotide binding]; DNA binding site 1042878005033 FCD domain; Region: FCD; pfam07729 1042878005034 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1042878005035 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042878005036 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1042878005037 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 1042878005038 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1042878005039 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1042878005040 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042878005041 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878005042 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878005043 Outer membrane efflux protein; Region: OEP; pfam02321 1042878005044 Outer membrane efflux protein; Region: OEP; pfam02321 1042878005045 PemK-like protein; Region: PemK; pfam02452 1042878005046 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative...; Region: 4RHOD_Repeat_1; cd01532 1042878005047 active site residue [active] 1042878005048 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 1042878005049 active site residue [active] 1042878005050 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 1042878005051 active site residue [active] 1042878005052 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 1042878005053 active site residue [active] 1042878005054 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1042878005055 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1042878005056 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878005057 active site 1042878005058 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1042878005059 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 1042878005060 dimer interface [polypeptide binding]; other site 1042878005061 active site 1042878005062 non-prolyl cis peptide bond; other site 1042878005063 insertion regions; other site 1042878005064 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1042878005065 NMT1-like family; Region: NMT1_2; pfam13379 1042878005066 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042878005067 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878005068 dimer interface [polypeptide binding]; other site 1042878005069 conserved gate region; other site 1042878005070 putative PBP binding loops; other site 1042878005071 ABC-ATPase subunit interface; other site 1042878005072 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1042878005073 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1042878005074 Walker A/P-loop; other site 1042878005075 ATP binding site [chemical binding]; other site 1042878005076 Q-loop/lid; other site 1042878005077 ABC transporter signature motif; other site 1042878005078 Walker B; other site 1042878005079 D-loop; other site 1042878005080 H-loop/switch region; other site 1042878005081 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042878005082 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1042878005083 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042878005084 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1042878005085 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1042878005086 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1042878005087 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1042878005088 dimer interface [polypeptide binding]; other site 1042878005089 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1042878005090 active site 1042878005091 Fe binding site [ion binding]; other site 1042878005092 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1042878005093 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878005094 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878005095 transcriptional activator TtdR; Provisional; Region: PRK09801 1042878005096 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878005097 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878005098 dimerization interface [polypeptide binding]; other site 1042878005099 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 1042878005100 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1042878005101 active site 1042878005102 trimer interface [polypeptide binding]; other site 1042878005103 dimer interface [polypeptide binding]; other site 1042878005104 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1042878005105 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1042878005106 putative active site [active] 1042878005107 putative NTP binding site [chemical binding]; other site 1042878005108 putative nucleic acid binding site [nucleotide binding]; other site 1042878005109 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878005110 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878005111 trimer interface [polypeptide binding]; other site 1042878005112 eyelet of channel; other site 1042878005113 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878005114 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878005115 putative substrate translocation pore; other site 1042878005116 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1042878005117 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1042878005118 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1042878005119 shikimate binding site; other site 1042878005120 NAD(P) binding site [chemical binding]; other site 1042878005121 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1042878005122 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1042878005123 dimer interface [polypeptide binding]; other site 1042878005124 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1042878005125 active site 1042878005126 Fe binding site [ion binding]; other site 1042878005127 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 1042878005128 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042878005129 PYR/PP interface [polypeptide binding]; other site 1042878005130 dimer interface [polypeptide binding]; other site 1042878005131 TPP binding site [chemical binding]; other site 1042878005132 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042878005133 Thiamine pyrophosphate (TPP) family, Xsc-like subfamily, TPP-binding module; composed of proteins similar to Alcaligenes defragrans sulfoacetaldehyde acetyltransferase (Xsc). Xsc plays a key role in the degradation of taurine, catalyzing the...; Region: TPP_Xsc_like; cd02013 1042878005134 TPP-binding site; other site 1042878005135 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1042878005136 putative sialic acid transporter; Region: 2A0112; TIGR00891 1042878005137 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878005138 putative substrate translocation pore; other site 1042878005139 amidase; Provisional; Region: PRK06170 1042878005140 Amidase; Region: Amidase; cl11426 1042878005141 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878005142 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878005143 DNA-binding site [nucleotide binding]; DNA binding site 1042878005144 FCD domain; Region: FCD; pfam07729 1042878005145 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1042878005146 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878005147 catalytic loop [active] 1042878005148 iron binding site [ion binding]; other site 1042878005149 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 1042878005150 FAD binding pocket [chemical binding]; other site 1042878005151 FAD binding motif [chemical binding]; other site 1042878005152 phosphate binding motif [ion binding]; other site 1042878005153 beta-alpha-beta structure motif; other site 1042878005154 NAD binding pocket [chemical binding]; other site 1042878005155 Domain of unknown function (DUF336); Region: DUF336; pfam03928 1042878005156 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1042878005157 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878005158 NAD(P) binding site [chemical binding]; other site 1042878005159 catalytic residues [active] 1042878005160 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1042878005161 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1042878005162 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1042878005163 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1042878005164 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878005165 catalytic loop [active] 1042878005166 iron binding site [ion binding]; other site 1042878005167 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1042878005168 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878005169 catalytic loop [active] 1042878005170 iron binding site [ion binding]; other site 1042878005171 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 1042878005172 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 1042878005173 metal ion-dependent adhesion site (MIDAS); other site 1042878005174 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 1042878005175 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 1042878005176 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1042878005177 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 1042878005178 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878005179 putative DNA binding site [nucleotide binding]; other site 1042878005180 putative Zn2+ binding site [ion binding]; other site 1042878005181 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878005182 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1042878005183 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878005184 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878005185 DNA-binding site [nucleotide binding]; DNA binding site 1042878005186 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878005187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878005188 homodimer interface [polypeptide binding]; other site 1042878005189 catalytic residue [active] 1042878005190 SnoaL-like domain; Region: SnoaL_2; pfam12680 1042878005191 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042878005192 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042878005193 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878005194 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878005195 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 1042878005196 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1042878005197 ATP-dependent DNA ligase; Validated; Region: PRK09247 1042878005198 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 1042878005199 active site 1042878005200 DNA binding site [nucleotide binding] 1042878005201 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 1042878005202 DNA binding site [nucleotide binding] 1042878005203 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1042878005204 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1042878005205 ATP binding site [chemical binding]; other site 1042878005206 putative Mg++ binding site [ion binding]; other site 1042878005207 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042878005208 nucleotide binding region [chemical binding]; other site 1042878005209 ATP-binding site [chemical binding]; other site 1042878005210 DEAD/H associated; Region: DEAD_assoc; pfam08494 1042878005211 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1042878005212 putative active site [active] 1042878005213 putative metal binding site [ion binding]; other site 1042878005214 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1042878005215 short chain dehydrogenase; Provisional; Region: PRK07577 1042878005216 classical (c) SDRs; Region: SDR_c; cd05233 1042878005217 NAD(P) binding site [chemical binding]; other site 1042878005218 active site 1042878005219 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878005220 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878005221 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878005222 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1042878005223 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1042878005224 putative active site [active] 1042878005225 putative NTP binding site [chemical binding]; other site 1042878005226 putative nucleic acid binding site [nucleotide binding]; other site 1042878005227 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1042878005228 Probable transposase; Region: OrfB_IS605; pfam01385 1042878005229 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878005230 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1042878005231 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1042878005232 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878005233 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878005234 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878005235 putative effector binding pocket; other site 1042878005236 dimerization interface [polypeptide binding]; other site 1042878005237 DUF35 OB-fold domain; Region: DUF35; pfam01796 1042878005238 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 1042878005239 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1042878005240 active site 1042878005241 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878005242 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878005243 NAD(P) binding site [chemical binding]; other site 1042878005244 active site 1042878005245 enoyl-CoA hydratase; Provisional; Region: PRK06494 1042878005246 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878005247 substrate binding site [chemical binding]; other site 1042878005248 oxyanion hole (OAH) forming residues; other site 1042878005249 trimer interface [polypeptide binding]; other site 1042878005250 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878005251 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1042878005252 CoenzymeA binding site [chemical binding]; other site 1042878005253 subunit interaction site [polypeptide binding]; other site 1042878005254 PHB binding site; other site 1042878005255 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878005256 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878005257 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042878005258 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878005259 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1042878005260 dimerization interface [polypeptide binding]; other site 1042878005261 substrate binding pocket [chemical binding]; other site 1042878005262 short chain dehydrogenase; Provisional; Region: PRK06180 1042878005263 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1042878005264 NADP binding site [chemical binding]; other site 1042878005265 active site 1042878005266 steroid binding site; other site 1042878005267 elongation factor G; Reviewed; Region: PRK13351 1042878005268 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 1042878005269 G1 box; other site 1042878005270 putative GEF interaction site [polypeptide binding]; other site 1042878005271 GTP/Mg2+ binding site [chemical binding]; other site 1042878005272 Switch I region; other site 1042878005273 G2 box; other site 1042878005274 G3 box; other site 1042878005275 Switch II region; other site 1042878005276 G4 box; other site 1042878005277 G5 box; other site 1042878005278 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 1042878005279 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 1042878005280 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 1042878005281 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 1042878005282 4Fe-4S binding domain; Region: Fer4; pfam00037 1042878005283 4Fe-4S binding domain; Region: Fer4; pfam00037 1042878005284 These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer...; Region: CYPOR_like_FNR; cd06208 1042878005285 dimerization interface [polypeptide binding]; other site 1042878005286 FAD binding pocket [chemical binding]; other site 1042878005287 FAD binding motif [chemical binding]; other site 1042878005288 catalytic residues [active] 1042878005289 NAD binding pocket [chemical binding]; other site 1042878005290 phosphate binding motif [ion binding]; other site 1042878005291 beta-alpha-beta structure motif; other site 1042878005292 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 1042878005293 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 1042878005294 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878005295 substrate binding site [chemical binding]; other site 1042878005296 oxyanion hole (OAH) forming residues; other site 1042878005297 trimer interface [polypeptide binding]; other site 1042878005298 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878005299 trimer interface [polypeptide binding]; other site 1042878005300 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 1042878005301 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878005302 non-specific DNA binding site [nucleotide binding]; other site 1042878005303 salt bridge; other site 1042878005304 sequence-specific DNA binding site [nucleotide binding]; other site 1042878005305 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 1042878005306 ADP binding site [chemical binding]; other site 1042878005307 magnesium binding site [ion binding]; other site 1042878005308 putative shikimate binding site; other site 1042878005309 aldehyde dehydrogenase; Provisional; Region: PRK11903 1042878005310 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042878005311 NAD(P) binding site [chemical binding]; other site 1042878005312 catalytic residues [active] 1042878005313 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 1042878005314 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878005315 acyl-activating enzyme (AAE) consensus motif; other site 1042878005316 AMP binding site [chemical binding]; other site 1042878005317 active site 1042878005318 CoA binding site [chemical binding]; other site 1042878005319 benzoate transport; Region: 2A0115; TIGR00895 1042878005320 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878005321 putative substrate translocation pore; other site 1042878005322 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878005323 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878005324 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1042878005325 catalytic triad [active] 1042878005326 dimer interface [polypeptide binding]; other site 1042878005327 conserved cis-peptide bond; other site 1042878005328 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878005329 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1042878005330 catalytic triad [active] 1042878005331 dimer interface [polypeptide binding]; other site 1042878005332 conserved cis-peptide bond; other site 1042878005333 LysR family transcriptional regulator; Provisional; Region: PRK14997 1042878005334 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878005335 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 1042878005336 putative effector binding pocket; other site 1042878005337 putative dimerization interface [polypeptide binding]; other site 1042878005338 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 1042878005339 rRNA binding site [nucleotide binding]; other site 1042878005340 predicted 30S ribosome binding site; other site 1042878005341 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1042878005342 DNA-binding site [nucleotide binding]; DNA binding site 1042878005343 RNA-binding motif; other site 1042878005344 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1042878005345 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1042878005346 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 1042878005347 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1042878005348 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1042878005349 dimerization interface [polypeptide binding]; other site 1042878005350 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042878005351 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042878005352 dimer interface [polypeptide binding]; other site 1042878005353 putative CheW interface [polypeptide binding]; other site 1042878005354 Phasin protein; Region: Phasin_2; pfam09361 1042878005355 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878005356 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878005357 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878005358 putative effector binding pocket; other site 1042878005359 dimerization interface [polypeptide binding]; other site 1042878005360 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878005361 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 1042878005362 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878005363 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042878005364 NAD(P) binding site [chemical binding]; other site 1042878005365 catalytic residues [active] 1042878005366 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1042878005367 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1042878005368 active site 1042878005369 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042878005370 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042878005371 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042878005372 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1042878005373 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878005374 catalytic triad [active] 1042878005375 dimer interface [polypeptide binding]; other site 1042878005376 conserved cis-peptide bond; other site 1042878005377 glutamate dehydrogenase; Provisional; Region: PRK09414 1042878005378 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1042878005379 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1042878005380 NAD(P) binding site [chemical binding]; other site 1042878005381 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878005382 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878005383 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878005384 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1042878005385 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1042878005386 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1042878005387 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1042878005388 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 1042878005389 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 1042878005390 NAD(P) binding site [chemical binding]; other site 1042878005391 catalytic residues [active] 1042878005392 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1042878005393 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1042878005394 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1042878005395 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878005396 DNA-binding site [nucleotide binding]; DNA binding site 1042878005397 FCD domain; Region: FCD; pfam07729 1042878005398 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1042878005399 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1042878005400 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 1042878005401 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878005402 Walker A/P-loop; other site 1042878005403 ATP binding site [chemical binding]; other site 1042878005404 Q-loop/lid; other site 1042878005405 ABC transporter signature motif; other site 1042878005406 Walker B; other site 1042878005407 D-loop; other site 1042878005408 H-loop/switch region; other site 1042878005409 TOBE domain; Region: TOBE_2; pfam08402 1042878005410 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 1042878005411 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878005412 dimer interface [polypeptide binding]; other site 1042878005413 conserved gate region; other site 1042878005414 putative PBP binding loops; other site 1042878005415 ABC-ATPase subunit interface; other site 1042878005416 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878005417 dimer interface [polypeptide binding]; other site 1042878005418 conserved gate region; other site 1042878005419 putative PBP binding loops; other site 1042878005420 ABC-ATPase subunit interface; other site 1042878005421 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 1042878005422 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878005423 catalytic residue [active] 1042878005424 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1042878005425 EamA-like transporter family; Region: EamA; pfam00892 1042878005426 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042878005427 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042878005428 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1042878005429 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1042878005430 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1042878005431 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1042878005432 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1042878005433 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1042878005434 putative active site [active] 1042878005435 putative substrate binding site [chemical binding]; other site 1042878005436 putative cosubstrate binding site; other site 1042878005437 catalytic site [active] 1042878005438 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878005439 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878005440 DNA-binding site [nucleotide binding]; DNA binding site 1042878005441 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878005442 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878005443 homodimer interface [polypeptide binding]; other site 1042878005444 catalytic residue [active] 1042878005445 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1042878005446 Domain of unknown function (DUF4188); Region: DUF4188; pfam13826 1042878005447 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042878005448 Cytochrome c; Region: Cytochrom_C; pfam00034 1042878005449 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1042878005450 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878005451 NAD(P) binding site [chemical binding]; other site 1042878005452 catalytic residues [active] 1042878005453 Protein of unknown function (DUF779); Region: DUF779; pfam05610 1042878005454 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1042878005455 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878005456 Walker A motif; other site 1042878005457 ATP binding site [chemical binding]; other site 1042878005458 Walker B motif; other site 1042878005459 arginine finger; other site 1042878005460 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878005461 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1042878005462 Transglycosylase; Region: Transgly; pfam00912 1042878005463 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1042878005464 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1042878005465 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1042878005466 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 1042878005467 transmembrane helices; other site 1042878005468 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 1042878005469 GTP cyclohydrolase I; Provisional; Region: PLN03044 1042878005470 active site 1042878005471 Sensors of blue-light using FAD; Region: BLUF; pfam04940 1042878005472 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 1042878005473 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878005474 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878005475 active site 1042878005476 phosphorylation site [posttranslational modification] 1042878005477 intermolecular recognition site; other site 1042878005478 dimerization interface [polypeptide binding]; other site 1042878005479 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878005480 DNA binding residues [nucleotide binding] 1042878005481 dimerization interface [polypeptide binding]; other site 1042878005482 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878005483 classical (c) SDRs; Region: SDR_c; cd05233 1042878005484 NAD(P) binding site [chemical binding]; other site 1042878005485 active site 1042878005486 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1042878005487 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878005488 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878005489 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 1042878005490 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1042878005491 N-terminal plug; other site 1042878005492 ligand-binding site [chemical binding]; other site 1042878005493 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878005494 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878005495 DNA-binding site [nucleotide binding]; DNA binding site 1042878005496 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878005497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878005498 homodimer interface [polypeptide binding]; other site 1042878005499 catalytic residue [active] 1042878005500 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 1042878005501 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1042878005502 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1042878005503 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1042878005504 dimer interface [polypeptide binding]; other site 1042878005505 PYR/PP interface [polypeptide binding]; other site 1042878005506 TPP binding site [chemical binding]; other site 1042878005507 substrate binding site [chemical binding]; other site 1042878005508 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 1042878005509 TPP-binding site; other site 1042878005510 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1042878005511 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878005512 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878005513 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 1042878005514 putative substrate binding pocket [chemical binding]; other site 1042878005515 dimerization interface [polypeptide binding]; other site 1042878005516 Uncharacterized conserved protein [Function unknown]; Region: COG5470 1042878005517 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878005518 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878005519 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878005520 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878005521 putative effector binding pocket; other site 1042878005522 dimerization interface [polypeptide binding]; other site 1042878005523 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878005524 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878005525 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042878005526 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1042878005527 NAD(P) binding site [chemical binding]; other site 1042878005528 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878005529 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1042878005530 oligomeric interface; other site 1042878005531 putative active site [active] 1042878005532 homodimer interface [polypeptide binding]; other site 1042878005533 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1042878005534 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1042878005535 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1042878005536 dimerization interface [polypeptide binding]; other site 1042878005537 ligand binding site [chemical binding]; other site 1042878005538 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878005539 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878005540 TM-ABC transporter signature motif; other site 1042878005541 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1042878005542 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878005543 TM-ABC transporter signature motif; other site 1042878005544 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878005545 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878005546 Walker A/P-loop; other site 1042878005547 ATP binding site [chemical binding]; other site 1042878005548 Q-loop/lid; other site 1042878005549 ABC transporter signature motif; other site 1042878005550 Walker B; other site 1042878005551 D-loop; other site 1042878005552 H-loop/switch region; other site 1042878005553 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878005554 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878005555 Walker A/P-loop; other site 1042878005556 ATP binding site [chemical binding]; other site 1042878005557 Q-loop/lid; other site 1042878005558 ABC transporter signature motif; other site 1042878005559 Walker B; other site 1042878005560 D-loop; other site 1042878005561 H-loop/switch region; other site 1042878005562 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1042878005563 Amidase; Region: Amidase; cl11426 1042878005564 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1042878005565 allantoate amidohydrolase; Reviewed; Region: PRK12893 1042878005566 active site 1042878005567 metal binding site [ion binding]; metal-binding site 1042878005568 dimer interface [polypeptide binding]; other site 1042878005569 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1042878005570 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878005571 non-specific DNA binding site [nucleotide binding]; other site 1042878005572 salt bridge; other site 1042878005573 sequence-specific DNA binding site [nucleotide binding]; other site 1042878005574 Cupin domain; Region: Cupin_2; pfam07883 1042878005575 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878005576 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878005577 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878005578 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1042878005579 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1042878005580 Probable transposase; Region: OrfB_IS605; pfam01385 1042878005581 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878005582 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1042878005583 EthD domain; Region: EthD; cl17553 1042878005584 Phasin protein; Region: Phasin_2; pfam09361 1042878005585 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1042878005586 DNA-binding site [nucleotide binding]; DNA binding site 1042878005587 RNA-binding motif; other site 1042878005588 Transglycosylase; Region: Transgly; pfam00912 1042878005589 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1042878005590 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1042878005591 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 1042878005592 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1042878005593 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1042878005594 P-loop; other site 1042878005595 Magnesium ion binding site [ion binding]; other site 1042878005596 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1042878005597 Magnesium ion binding site [ion binding]; other site 1042878005598 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878005599 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878005600 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878005601 dimerization interface [polypeptide binding]; other site 1042878005602 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1042878005603 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1042878005604 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878005605 glutamate carboxypeptidase; Reviewed; Region: PRK06133 1042878005606 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 1042878005607 metal binding site [ion binding]; metal-binding site 1042878005608 dimer interface [polypeptide binding]; other site 1042878005609 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878005610 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878005611 TM-ABC transporter signature motif; other site 1042878005612 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878005613 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878005614 TM-ABC transporter signature motif; other site 1042878005615 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878005616 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878005617 Walker A/P-loop; other site 1042878005618 ATP binding site [chemical binding]; other site 1042878005619 Q-loop/lid; other site 1042878005620 ABC transporter signature motif; other site 1042878005621 Walker B; other site 1042878005622 D-loop; other site 1042878005623 H-loop/switch region; other site 1042878005624 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878005625 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878005626 Walker A/P-loop; other site 1042878005627 ATP binding site [chemical binding]; other site 1042878005628 Q-loop/lid; other site 1042878005629 ABC transporter signature motif; other site 1042878005630 Walker B; other site 1042878005631 D-loop; other site 1042878005632 H-loop/switch region; other site 1042878005633 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_3; cd06336 1042878005634 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 1042878005635 putative ligand binding site [chemical binding]; other site 1042878005636 FecR protein; Region: FecR; pfam04773 1042878005637 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878005638 metal binding site [ion binding]; metal-binding site 1042878005639 active site 1042878005640 I-site; other site 1042878005641 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1042878005642 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1042878005643 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1042878005644 dimerization interface [polypeptide binding]; other site 1042878005645 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042878005646 dimer interface [polypeptide binding]; other site 1042878005647 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1042878005648 putative CheW interface [polypeptide binding]; other site 1042878005649 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1042878005650 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1042878005651 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1042878005652 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042878005653 TPR repeat; Region: TPR_11; pfam13414 1042878005654 binding surface 1042878005655 TPR motif; other site 1042878005656 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 1042878005657 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1042878005658 putative binding surface; other site 1042878005659 active site 1042878005660 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1042878005661 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878005662 ATP binding site [chemical binding]; other site 1042878005663 Mg2+ binding site [ion binding]; other site 1042878005664 G-X-G motif; other site 1042878005665 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1042878005666 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878005667 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878005668 active site 1042878005669 phosphorylation site [posttranslational modification] 1042878005670 intermolecular recognition site; other site 1042878005671 dimerization interface [polypeptide binding]; other site 1042878005672 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 1042878005673 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878005674 phosphorylation site [posttranslational modification] 1042878005675 intermolecular recognition site; other site 1042878005676 CheB methylesterase; Region: CheB_methylest; pfam01339 1042878005677 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878005678 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878005679 active site 1042878005680 phosphorylation site [posttranslational modification] 1042878005681 intermolecular recognition site; other site 1042878005682 dimerization interface [polypeptide binding]; other site 1042878005683 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042878005684 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878005685 metal binding site [ion binding]; metal-binding site 1042878005686 active site 1042878005687 I-site; other site 1042878005688 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1042878005689 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1042878005690 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1042878005691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1042878005692 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1042878005693 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1042878005694 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 1042878005695 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1042878005696 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878005697 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1042878005698 tetramerization interface [polypeptide binding]; other site 1042878005699 NAD(P) binding site [chemical binding]; other site 1042878005700 catalytic residues [active] 1042878005701 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 1042878005702 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 1042878005703 Predicted small integral membrane protein [Function unknown]; Region: COG5605 1042878005704 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 1042878005705 Subunit I/III interface [polypeptide binding]; other site 1042878005706 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 1042878005707 Subunit I/III interface [polypeptide binding]; other site 1042878005708 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1042878005709 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 1042878005710 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1042878005711 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1042878005712 Cytochrome c; Region: Cytochrom_C; pfam00034 1042878005713 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 1042878005714 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878005715 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878005716 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042878005717 dimerization interface [polypeptide binding]; other site 1042878005718 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042878005719 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878005720 putative substrate translocation pore; other site 1042878005721 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1042878005722 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1042878005723 active site 1042878005724 Zn binding site [ion binding]; other site 1042878005725 allantoate amidohydrolase; Reviewed; Region: PRK12893 1042878005726 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1042878005727 active site 1042878005728 metal binding site [ion binding]; metal-binding site 1042878005729 dimer interface [polypeptide binding]; other site 1042878005730 Rubredoxin [Energy production and conversion]; Region: COG1773 1042878005731 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1042878005732 iron binding site [ion binding]; other site 1042878005733 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1042878005734 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1042878005735 N-terminal plug; other site 1042878005736 ligand-binding site [chemical binding]; other site 1042878005737 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1042878005738 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1042878005739 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1042878005740 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1042878005741 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1042878005742 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1042878005743 ligand binding site [chemical binding]; other site 1042878005744 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042878005745 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878005746 putative substrate translocation pore; other site 1042878005747 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 1042878005748 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042878005749 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042878005750 ligand binding site [chemical binding]; other site 1042878005751 flexible hinge region; other site 1042878005752 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1042878005753 putative switch regulator; other site 1042878005754 non-specific DNA interactions [nucleotide binding]; other site 1042878005755 DNA binding site [nucleotide binding] 1042878005756 sequence specific DNA binding site [nucleotide binding]; other site 1042878005757 putative cAMP binding site [chemical binding]; other site 1042878005758 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1042878005759 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1042878005760 Transposase; Region: HTH_Tnp_1; pfam01527 1042878005761 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878005762 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878005763 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878005764 dimerization interface [polypeptide binding]; other site 1042878005765 transcriptional regulator RcsB; Provisional; Region: PRK10840 1042878005766 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878005767 DNA binding residues [nucleotide binding] 1042878005768 dimerization interface [polypeptide binding]; other site 1042878005769 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878005770 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1042878005771 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878005772 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878005773 putative substrate translocation pore; other site 1042878005774 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878005775 MarR family; Region: MarR_2; cl17246 1042878005776 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1042878005777 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042878005778 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1042878005779 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878005780 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1042878005781 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878005782 putative substrate translocation pore; other site 1042878005783 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 1042878005784 Cupin domain; Region: Cupin_2; pfam07883 1042878005785 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1042878005786 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1042878005787 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878005788 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1042878005789 NAD(P) binding site [chemical binding]; other site 1042878005790 active site 1042878005791 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878005792 Coenzyme A binding pocket [chemical binding]; other site 1042878005793 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 1042878005794 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1042878005795 conserved cis-peptide bond; other site 1042878005796 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1042878005797 putative transporter; Provisional; Region: PRK10504 1042878005798 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878005799 putative substrate translocation pore; other site 1042878005800 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1042878005801 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 1042878005802 COQ9; Region: COQ9; pfam08511 1042878005803 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1042878005804 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1042878005805 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1042878005806 acyl-activating enzyme (AAE) consensus motif; other site 1042878005807 active site 1042878005808 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1042878005809 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1042878005810 putative acyl-acceptor binding pocket; other site 1042878005811 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1042878005812 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1042878005813 Ligand Binding Site [chemical binding]; other site 1042878005814 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1042878005815 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1042878005816 N-terminal plug; other site 1042878005817 ligand-binding site [chemical binding]; other site 1042878005818 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1042878005819 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042878005820 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878005821 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878005822 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878005823 dimerization interface [polypeptide binding]; other site 1042878005824 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1042878005825 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1042878005826 metal binding site [ion binding]; metal-binding site 1042878005827 putative dimer interface [polypeptide binding]; other site 1042878005828 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878005829 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042878005830 putative substrate translocation pore; other site 1042878005831 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1042878005832 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878005833 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878005834 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1042878005835 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878005836 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1042878005837 putative dimerization interface [polypeptide binding]; other site 1042878005838 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878005839 MarR family; Region: MarR_2; cl17246 1042878005840 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1042878005841 active site 1042878005842 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 1042878005843 dimer interface [polypeptide binding]; other site 1042878005844 non-prolyl cis peptide bond; other site 1042878005845 insertion regions; other site 1042878005846 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1042878005847 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1042878005848 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878005849 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878005850 trimer interface [polypeptide binding]; other site 1042878005851 eyelet of channel; other site 1042878005852 benzoate transport; Region: 2A0115; TIGR00895 1042878005853 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878005854 putative substrate translocation pore; other site 1042878005855 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 1042878005856 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1042878005857 dimer interface [polypeptide binding]; other site 1042878005858 PYR/PP interface [polypeptide binding]; other site 1042878005859 TPP binding site [chemical binding]; other site 1042878005860 substrate binding site [chemical binding]; other site 1042878005861 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 1042878005862 TPP-binding site; other site 1042878005863 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 1042878005864 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1042878005865 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1042878005866 active site 1042878005867 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 1042878005868 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042878005869 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1042878005870 active site 1042878005871 FMN binding site [chemical binding]; other site 1042878005872 substrate binding site [chemical binding]; other site 1042878005873 homotetramer interface [polypeptide binding]; other site 1042878005874 catalytic residue [active] 1042878005875 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 1042878005876 Cupin domain; Region: Cupin_2; pfam07883 1042878005877 Cupin domain; Region: Cupin_2; pfam07883 1042878005878 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878005879 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878005880 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1042878005881 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 1042878005882 putative active site [active] 1042878005883 catalytic triad [active] 1042878005884 putative dimer interface [polypeptide binding]; other site 1042878005885 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1042878005886 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1042878005887 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878005888 MarR family; Region: MarR_2; pfam12802 1042878005889 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878005890 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878005891 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878005892 putative effector binding pocket; other site 1042878005893 dimerization interface [polypeptide binding]; other site 1042878005894 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042878005895 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1042878005896 FMN binding site [chemical binding]; other site 1042878005897 active site 1042878005898 substrate binding site [chemical binding]; other site 1042878005899 catalytic residue [active] 1042878005900 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042878005901 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042878005902 dimer interface [polypeptide binding]; other site 1042878005903 putative CheW interface [polypeptide binding]; other site 1042878005904 hypothetical protein; Provisional; Region: PRK07483 1042878005905 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1042878005906 inhibitor-cofactor binding pocket; inhibition site 1042878005907 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878005908 catalytic residue [active] 1042878005909 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1042878005910 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042878005911 active site 1042878005912 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042878005913 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878005914 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878005915 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878005916 non-specific DNA binding site [nucleotide binding]; other site 1042878005917 salt bridge; other site 1042878005918 sequence-specific DNA binding site [nucleotide binding]; other site 1042878005919 PAS domain S-box; Region: sensory_box; TIGR00229 1042878005920 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878005921 heme pocket [chemical binding]; other site 1042878005922 putative active site [active] 1042878005923 PAS fold; Region: PAS_3; pfam08447 1042878005924 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042878005925 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1042878005926 [2Fe-2S] cluster binding site [ion binding]; other site 1042878005927 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_2; cd08886 1042878005928 putative alpha subunit interface [polypeptide binding]; other site 1042878005929 putative active site [active] 1042878005930 putative substrate binding site [chemical binding]; other site 1042878005931 Fe binding site [ion binding]; other site 1042878005932 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 1042878005933 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878005934 tetramerization interface [polypeptide binding]; other site 1042878005935 NAD(P) binding site [chemical binding]; other site 1042878005936 catalytic residues [active] 1042878005937 choline dehydrogenase; Validated; Region: PRK02106 1042878005938 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1042878005939 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; pfam09694 1042878005940 Amino acid permease; Region: AA_permease_2; pfam13520 1042878005941 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1042878005942 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1042878005943 FMN-binding pocket [chemical binding]; other site 1042878005944 flavin binding motif; other site 1042878005945 phosphate binding motif [ion binding]; other site 1042878005946 beta-alpha-beta structure motif; other site 1042878005947 NAD binding pocket [chemical binding]; other site 1042878005948 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878005949 catalytic loop [active] 1042878005950 iron binding site [ion binding]; other site 1042878005951 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 1042878005952 putative hydrophobic ligand binding site [chemical binding]; other site 1042878005953 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878005954 dimerization interface [polypeptide binding]; other site 1042878005955 putative DNA binding site [nucleotide binding]; other site 1042878005956 putative Zn2+ binding site [ion binding]; other site 1042878005957 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042878005958 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878005959 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1042878005960 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1042878005961 Walker A/P-loop; other site 1042878005962 ATP binding site [chemical binding]; other site 1042878005963 Q-loop/lid; other site 1042878005964 ABC transporter signature motif; other site 1042878005965 Walker B; other site 1042878005966 D-loop; other site 1042878005967 H-loop/switch region; other site 1042878005968 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1042878005969 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1042878005970 FtsX-like permease family; Region: FtsX; pfam02687 1042878005971 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1042878005972 FtsX-like permease family; Region: FtsX; pfam02687 1042878005973 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 1042878005974 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1042878005975 CDP-diacylglycerol pyrophosphatase; Region: CDH; pfam02611 1042878005976 Electron transfer DM13; Region: DM13; pfam10517 1042878005977 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878005978 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878005979 trimer interface [polypeptide binding]; other site 1042878005980 eyelet of channel; other site 1042878005981 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1042878005982 Transglycosylase; Region: Transgly; pfam00912 1042878005983 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1042878005984 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1042878005985 oligomeric interface; other site 1042878005986 putative active site [active] 1042878005987 homodimer interface [polypeptide binding]; other site 1042878005988 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1042878005989 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 1042878005990 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 1042878005991 Cupin domain; Region: Cupin_2; cl17218 1042878005992 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878005993 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878005994 Hemerythrin family; Region: Hemerythrin-like; cl15774 1042878005995 Hemerythrin; Region: Hemerythrin; cd12107 1042878005996 Fe binding site [ion binding]; other site 1042878005997 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878005998 MarR family; Region: MarR_2; cl17246 1042878005999 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 1042878006000 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042878006001 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1042878006002 hydrophobic ligand binding site; other site 1042878006003 NMT1/THI5 like; Region: NMT1; pfam09084 1042878006004 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 1042878006005 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 1042878006006 dimerization interface [polypeptide binding]; other site 1042878006007 active site 1042878006008 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1042878006009 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1042878006010 FMN-binding pocket [chemical binding]; other site 1042878006011 flavin binding motif; other site 1042878006012 phosphate binding motif [ion binding]; other site 1042878006013 beta-alpha-beta structure motif; other site 1042878006014 NAD binding pocket [chemical binding]; other site 1042878006015 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878006016 catalytic loop [active] 1042878006017 iron binding site [ion binding]; other site 1042878006018 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1042878006019 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1042878006020 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1042878006021 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878006022 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1042878006023 Double zinc ribbon; Region: DZR; pfam12773 1042878006024 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1042878006025 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1042878006026 cyclase homology domain; Region: CHD; cd07302 1042878006027 nucleotidyl binding site; other site 1042878006028 metal binding site [ion binding]; metal-binding site 1042878006029 dimer interface [polypeptide binding]; other site 1042878006030 AAA ATPase domain; Region: AAA_16; pfam13191 1042878006031 Predicted ATPase [General function prediction only]; Region: COG3899 1042878006032 Predicted ATPase [General function prediction only]; Region: COG3903 1042878006033 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 1042878006034 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042878006035 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1042878006036 FMN binding site [chemical binding]; other site 1042878006037 active site 1042878006038 substrate binding site [chemical binding]; other site 1042878006039 catalytic residue [active] 1042878006040 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1042878006041 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1042878006042 active site 1042878006043 catalytic tetrad [active] 1042878006044 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878006045 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878006046 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 1042878006047 putative effector binding pocket; other site 1042878006048 dimerization interface [polypeptide binding]; other site 1042878006049 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1042878006050 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1042878006051 active site 1042878006052 catalytic tetrad [active] 1042878006053 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878006054 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878006055 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042878006056 dimerization interface [polypeptide binding]; other site 1042878006057 substrate binding pocket [chemical binding]; other site 1042878006058 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042878006059 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878006060 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1042878006061 dimerization interface [polypeptide binding]; other site 1042878006062 substrate binding pocket [chemical binding]; other site 1042878006063 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 1042878006064 active site 1 [active] 1042878006065 active site 2 [active] 1042878006066 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1042878006067 Amidohydrolase; Region: Amidohydro_2; pfam04909 1042878006068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878006069 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878006070 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878006071 enoyl-CoA hydratase; Provisional; Region: PRK06127 1042878006072 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878006073 substrate binding site [chemical binding]; other site 1042878006074 oxyanion hole (OAH) forming residues; other site 1042878006075 trimer interface [polypeptide binding]; other site 1042878006076 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1042878006077 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1042878006078 putative active site [active] 1042878006079 metal binding site [ion binding]; metal-binding site 1042878006080 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1042878006081 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1042878006082 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1042878006083 Amidohydrolase; Region: Amidohydro_2; pfam04909 1042878006084 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1042878006085 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1042878006086 DctM-like transporters; Region: DctM; pfam06808 1042878006087 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 1042878006088 trimer interface [polypeptide binding]; other site 1042878006089 putative Zn binding site [ion binding]; other site 1042878006090 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1042878006091 Spore germination protein; Region: Spore_permease; cl17796 1042878006092 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 1042878006093 active site 1042878006094 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1042878006095 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 1042878006096 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 1042878006097 putative NADP binding site [chemical binding]; other site 1042878006098 putative substrate binding site [chemical binding]; other site 1042878006099 active site 1042878006100 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1042878006101 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1042878006102 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 1042878006103 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878006104 FeS/SAM binding site; other site 1042878006105 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 1042878006106 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 1042878006107 ligand binding site; other site 1042878006108 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 1042878006109 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 1042878006110 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1042878006111 B12 binding site [chemical binding]; other site 1042878006112 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878006113 FeS/SAM binding site; other site 1042878006114 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 1042878006115 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 1042878006116 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1042878006117 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 1042878006118 VacJ like lipoprotein; Region: VacJ; cl01073 1042878006119 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1042878006120 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1042878006121 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 1042878006122 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 1042878006123 CopC domain; Region: CopC; pfam04234 1042878006124 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1042878006125 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1042878006126 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1042878006127 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1042878006128 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1042878006129 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 1042878006130 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878006131 active site 1042878006132 phosphorylation site [posttranslational modification] 1042878006133 intermolecular recognition site; other site 1042878006134 dimerization interface [polypeptide binding]; other site 1042878006135 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878006136 DNA binding site [nucleotide binding] 1042878006137 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1042878006138 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1042878006139 dimerization interface [polypeptide binding]; other site 1042878006140 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878006141 dimer interface [polypeptide binding]; other site 1042878006142 phosphorylation site [posttranslational modification] 1042878006143 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878006144 ATP binding site [chemical binding]; other site 1042878006145 Mg2+ binding site [ion binding]; other site 1042878006146 G-X-G motif; other site 1042878006147 CHASE2 domain; Region: CHASE2; pfam05226 1042878006148 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 1042878006149 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1042878006150 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878006151 dimer interface [polypeptide binding]; other site 1042878006152 phosphorylation site [posttranslational modification] 1042878006153 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878006154 ATP binding site [chemical binding]; other site 1042878006155 Mg2+ binding site [ion binding]; other site 1042878006156 G-X-G motif; other site 1042878006157 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1042878006158 FecR protein; Region: FecR; pfam04773 1042878006159 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042878006160 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878006161 active site 1042878006162 phosphorylation site [posttranslational modification] 1042878006163 intermolecular recognition site; other site 1042878006164 dimerization interface [polypeptide binding]; other site 1042878006165 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878006166 DNA binding site [nucleotide binding] 1042878006167 Predicted membrane protein [Function unknown]; Region: COG4267 1042878006168 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_3; cd03813 1042878006169 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042878006170 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 1042878006171 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1042878006172 GAF domain; Region: GAF_3; pfam13492 1042878006173 Predicted integral membrane protein [Function unknown]; Region: COG5616 1042878006174 Tetratricopeptide repeat; Region: TPR_15; pfam13429 1042878006175 Uncharacterized conserved protein [Function unknown]; Region: COG3868 1042878006176 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 1042878006177 putative active site [active] 1042878006178 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1042878006179 DNA-binding site [nucleotide binding]; DNA binding site 1042878006180 RNA-binding motif; other site 1042878006181 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1042878006182 catalytic residues [active] 1042878006183 substrate binding pocket [chemical binding]; other site 1042878006184 substrate-Mg2+ binding site; other site 1042878006185 aspartate-rich region 1; other site 1042878006186 aspartate-rich region 2; other site 1042878006187 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 1042878006188 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 1042878006189 Active site cavity [active] 1042878006190 catalytic acid [active] 1042878006191 hypothetical protein; Provisional; Region: PRK07077 1042878006192 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1042878006193 putative chaperone; Provisional; Region: PRK11678 1042878006194 nucleotide binding site [chemical binding]; other site 1042878006195 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1042878006196 SBD interface [polypeptide binding]; other site 1042878006197 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1042878006198 dimer interface [polypeptide binding]; other site 1042878006199 FMN binding site [chemical binding]; other site 1042878006200 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878006201 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878006202 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 1042878006203 active site 1042878006204 oxalacetate binding site [chemical binding]; other site 1042878006205 citrylCoA binding site [chemical binding]; other site 1042878006206 coenzyme A binding site [chemical binding]; other site 1042878006207 catalytic triad [active] 1042878006208 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042878006209 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878006210 metal binding site [ion binding]; metal-binding site 1042878006211 active site 1042878006212 I-site; other site 1042878006213 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878006214 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1042878006215 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878006216 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878006217 S-adenosylmethionine binding site [chemical binding]; other site 1042878006218 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042878006219 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1042878006220 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1042878006221 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1042878006222 Walker A/P-loop; other site 1042878006223 ATP binding site [chemical binding]; other site 1042878006224 Q-loop/lid; other site 1042878006225 ABC transporter signature motif; other site 1042878006226 Walker B; other site 1042878006227 D-loop; other site 1042878006228 H-loop/switch region; other site 1042878006229 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1042878006230 NMT1-like family; Region: NMT1_2; pfam13379 1042878006231 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1042878006232 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1042878006233 active site 1042878006234 iron coordination sites [ion binding]; other site 1042878006235 substrate binding pocket [chemical binding]; other site 1042878006236 Cytochrome c; Region: Cytochrom_C; pfam00034 1042878006237 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1042878006238 Moco binding site; other site 1042878006239 metal coordination site [ion binding]; other site 1042878006240 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1042878006241 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1042878006242 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042878006243 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878006244 ABC-ATPase subunit interface; other site 1042878006245 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042878006246 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878006247 dimer interface [polypeptide binding]; other site 1042878006248 conserved gate region; other site 1042878006249 putative PBP binding loops; other site 1042878006250 ABC-ATPase subunit interface; other site 1042878006251 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1042878006252 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1042878006253 Walker A/P-loop; other site 1042878006254 ATP binding site [chemical binding]; other site 1042878006255 Q-loop/lid; other site 1042878006256 ABC transporter signature motif; other site 1042878006257 Walker B; other site 1042878006258 D-loop; other site 1042878006259 H-loop/switch region; other site 1042878006260 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1042878006261 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1042878006262 active site 1042878006263 iron coordination sites [ion binding]; other site 1042878006264 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1042878006265 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1042878006266 active site 1042878006267 non-prolyl cis peptide bond; other site 1042878006268 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 1042878006269 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1042878006270 homodimer interface [polypeptide binding]; other site 1042878006271 substrate-cofactor binding pocket; other site 1042878006272 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878006273 catalytic residue [active] 1042878006274 Predicted integral membrane protein [Function unknown]; Region: COG0392 1042878006275 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1042878006276 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1042878006277 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1042878006278 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1042878006279 tetramer interface [polypeptide binding]; other site 1042878006280 TPP-binding site [chemical binding]; other site 1042878006281 heterodimer interface [polypeptide binding]; other site 1042878006282 phosphorylation loop region [posttranslational modification] 1042878006283 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1042878006284 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1042878006285 alpha subunit interface [polypeptide binding]; other site 1042878006286 TPP binding site [chemical binding]; other site 1042878006287 heterodimer interface [polypeptide binding]; other site 1042878006288 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1042878006289 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1042878006290 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1042878006291 E3 interaction surface; other site 1042878006292 lipoyl attachment site [posttranslational modification]; other site 1042878006293 e3 binding domain; Region: E3_binding; pfam02817 1042878006294 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1042878006295 putative transporter; Provisional; Region: PRK11660 1042878006296 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1042878006297 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1042878006298 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1042878006299 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1042878006300 Ligand Binding Site [chemical binding]; other site 1042878006301 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1042878006302 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 1042878006303 dimer interface [polypeptide binding]; other site 1042878006304 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1042878006305 catalytic triad [active] 1042878006306 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1042878006307 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1042878006308 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878006309 active site 1042878006310 phosphorylation site [posttranslational modification] 1042878006311 intermolecular recognition site; other site 1042878006312 dimerization interface [polypeptide binding]; other site 1042878006313 Ubiquitin-like proteins; Region: UBQ; cl00155 1042878006314 charged pocket; other site 1042878006315 hydrophobic patch; other site 1042878006316 BNR repeat-like domain; Region: BNR_2; pfam13088 1042878006317 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1042878006318 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1042878006319 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 1042878006320 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878006321 H-NS histone family; Region: Histone_HNS; pfam00816 1042878006322 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1042878006323 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042878006324 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042878006325 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878006326 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878006327 NnrS protein; Region: NnrS; pfam05940 1042878006328 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1042878006329 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878006330 putative substrate translocation pore; other site 1042878006331 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 1042878006332 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1042878006333 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1042878006334 [4Fe-4S] binding site [ion binding]; other site 1042878006335 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1042878006336 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1042878006337 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1042878006338 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 1042878006339 molybdopterin cofactor binding site; other site 1042878006340 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1042878006341 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 1042878006342 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1042878006343 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1042878006344 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1042878006345 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 1042878006346 active site clefts [active] 1042878006347 zinc binding site [ion binding]; other site 1042878006348 dimer interface [polypeptide binding]; other site 1042878006349 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 1042878006350 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 1042878006351 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878006352 transcriptional activator TtdR; Provisional; Region: PRK09801 1042878006353 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 1042878006354 putative effector binding pocket; other site 1042878006355 putative dimerization interface [polypeptide binding]; other site 1042878006356 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878006357 isopropylmalate isomerase large subunit; Provisional; Region: PRK12466 1042878006358 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1042878006359 substrate binding site [chemical binding]; other site 1042878006360 ligand binding site [chemical binding]; other site 1042878006361 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1042878006362 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 1042878006363 substrate binding site [chemical binding]; other site 1042878006364 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042878006365 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1042878006366 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1042878006367 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1042878006368 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1042878006369 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1042878006370 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042878006371 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042878006372 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 1042878006373 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042878006374 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 1042878006375 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878006376 FeS/SAM binding site; other site 1042878006377 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1042878006378 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042878006379 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1042878006380 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1042878006381 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1042878006382 active site 1042878006383 SAM binding site [chemical binding]; other site 1042878006384 homodimer interface [polypeptide binding]; other site 1042878006385 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1042878006386 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042878006387 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 1042878006388 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878006389 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042878006390 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1042878006391 TAP-like protein; Region: Abhydrolase_4; pfam08386 1042878006392 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1042878006393 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1042878006394 tetramer interface [polypeptide binding]; other site 1042878006395 active site 1042878006396 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 1042878006397 heterodimer interface [polypeptide binding]; other site 1042878006398 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1042878006399 active site 1042878006400 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 1042878006401 multimer interface [polypeptide binding]; other site 1042878006402 heterodimer interface [polypeptide binding]; other site 1042878006403 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1042878006404 active site 1042878006405 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1042878006406 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878006407 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878006408 dimerization interface [polypeptide binding]; other site 1042878006409 benzoate transport; Region: 2A0115; TIGR00895 1042878006410 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878006411 putative substrate translocation pore; other site 1042878006412 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878006413 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 1042878006414 HAMP domain; Region: HAMP; pfam00672 1042878006415 dimerization interface [polypeptide binding]; other site 1042878006416 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042878006417 dimer interface [polypeptide binding]; other site 1042878006418 putative CheW interface [polypeptide binding]; other site 1042878006419 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878006420 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878006421 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878006422 putative effector binding pocket; other site 1042878006423 dimerization interface [polypeptide binding]; other site 1042878006424 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1042878006425 Histidine kinase; Region: HisKA_3; pfam07730 1042878006426 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878006427 ATP binding site [chemical binding]; other site 1042878006428 Mg2+ binding site [ion binding]; other site 1042878006429 G-X-G motif; other site 1042878006430 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878006431 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878006432 active site 1042878006433 phosphorylation site [posttranslational modification] 1042878006434 intermolecular recognition site; other site 1042878006435 dimerization interface [polypeptide binding]; other site 1042878006436 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878006437 DNA binding residues [nucleotide binding] 1042878006438 dimerization interface [polypeptide binding]; other site 1042878006439 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 1042878006440 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1042878006441 BON domain; Region: BON; pfam04972 1042878006442 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878006443 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878006444 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_5; cd08426 1042878006445 putative dimerization interface [polypeptide binding]; other site 1042878006446 amidase; Provisional; Region: PRK07486 1042878006447 Amidase; Region: Amidase; cl11426 1042878006448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878006449 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1042878006450 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042878006451 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878006452 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878006453 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 1042878006454 putative substrate binding pocket [chemical binding]; other site 1042878006455 putative dimerization interface [polypeptide binding]; other site 1042878006456 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 1042878006457 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1042878006458 homotrimer interaction site [polypeptide binding]; other site 1042878006459 putative active site [active] 1042878006460 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1042878006461 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1042878006462 DNA binding residues [nucleotide binding] 1042878006463 dimer interface [polypeptide binding]; other site 1042878006464 [2Fe-2S] cluster binding site [ion binding]; other site 1042878006465 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1042878006466 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1042878006467 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1042878006468 catalytic residues [active] 1042878006469 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1042878006470 ornithine cyclodeaminase; Validated; Region: PRK06141 1042878006471 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1042878006472 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1042878006473 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 1042878006474 putative [Fe4-S4] binding site [ion binding]; other site 1042878006475 putative molybdopterin cofactor binding site [chemical binding]; other site 1042878006476 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1042878006477 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1042878006478 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 1042878006479 putative molybdopterin cofactor binding site; other site 1042878006480 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 1042878006481 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1042878006482 FAD binding pocket [chemical binding]; other site 1042878006483 FAD binding motif [chemical binding]; other site 1042878006484 phosphate binding motif [ion binding]; other site 1042878006485 beta-alpha-beta structure motif; other site 1042878006486 NAD binding pocket [chemical binding]; other site 1042878006487 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878006488 catalytic loop [active] 1042878006489 iron binding site [ion binding]; other site 1042878006490 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878006491 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878006492 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 1042878006493 putative substrate binding pocket [chemical binding]; other site 1042878006494 dimerization interface [polypeptide binding]; other site 1042878006495 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 1042878006496 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 1042878006497 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 1042878006498 Hemerythrin-like domain; Region: Hr-like; cd12108 1042878006499 Fe binding site [ion binding]; other site 1042878006500 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1042878006501 GAF domain; Region: GAF; pfam01590 1042878006502 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878006503 Walker A motif; other site 1042878006504 ATP binding site [chemical binding]; other site 1042878006505 Walker B motif; other site 1042878006506 arginine finger; other site 1042878006507 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1042878006508 PAS fold; Region: PAS; pfam00989 1042878006509 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042878006510 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878006511 metal binding site [ion binding]; metal-binding site 1042878006512 active site 1042878006513 I-site; other site 1042878006514 SCP-2 sterol transfer family; Region: SCP2; cl01225 1042878006515 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1042878006516 putative protease; Provisional; Region: PRK15447 1042878006517 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1042878006518 Peptidase family U32; Region: Peptidase_U32; pfam01136 1042878006519 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1042878006520 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1042878006521 FMN binding site [chemical binding]; other site 1042878006522 substrate binding site [chemical binding]; other site 1042878006523 putative catalytic residue [active] 1042878006524 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 1042878006525 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1042878006526 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1042878006527 dimerization interface [polypeptide binding]; other site 1042878006528 GAF domain; Region: GAF_3; pfam13492 1042878006529 Histidine kinase; Region: HisKA_3; pfam07730 1042878006530 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878006531 ATP binding site [chemical binding]; other site 1042878006532 Mg2+ binding site [ion binding]; other site 1042878006533 G-X-G motif; other site 1042878006534 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878006535 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878006536 active site 1042878006537 phosphorylation site [posttranslational modification] 1042878006538 intermolecular recognition site; other site 1042878006539 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878006540 DNA binding residues [nucleotide binding] 1042878006541 dimerization interface [polypeptide binding]; other site 1042878006542 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 1042878006543 Putative ParB-like nuclease; Region: ParBc_2; cl17538 1042878006544 short chain dehydrogenase; Provisional; Region: PRK06701 1042878006545 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1042878006546 NAD binding site [chemical binding]; other site 1042878006547 metal binding site [ion binding]; metal-binding site 1042878006548 active site 1042878006549 BON domain; Region: BON; pfam04972 1042878006550 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 1042878006551 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878006552 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042878006553 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 1042878006554 Low affinity iron permease; Region: Iron_permease; pfam04120 1042878006555 PRC-barrel domain; Region: PRC; pfam05239 1042878006556 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878006557 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1042878006558 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 1042878006559 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1042878006560 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878006561 active site 1042878006562 phosphorylation site [posttranslational modification] 1042878006563 intermolecular recognition site; other site 1042878006564 dimerization interface [polypeptide binding]; other site 1042878006565 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878006566 Walker A motif; other site 1042878006567 ATP binding site [chemical binding]; other site 1042878006568 Walker B motif; other site 1042878006569 arginine finger; other site 1042878006570 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878006571 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1042878006572 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878006573 Walker A motif; other site 1042878006574 ATP binding site [chemical binding]; other site 1042878006575 Walker B motif; other site 1042878006576 arginine finger; other site 1042878006577 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878006578 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878006579 PAS domain; Region: PAS_9; pfam13426 1042878006580 putative active site [active] 1042878006581 heme pocket [chemical binding]; other site 1042878006582 PAS fold; Region: PAS; pfam00989 1042878006583 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1042878006584 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878006585 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878006586 dimer interface [polypeptide binding]; other site 1042878006587 phosphorylation site [posttranslational modification] 1042878006588 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878006589 ATP binding site [chemical binding]; other site 1042878006590 Mg2+ binding site [ion binding]; other site 1042878006591 G-X-G motif; other site 1042878006592 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878006593 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878006594 active site 1042878006595 phosphorylation site [posttranslational modification] 1042878006596 intermolecular recognition site; other site 1042878006597 dimerization interface [polypeptide binding]; other site 1042878006598 short chain dehydrogenase; Provisional; Region: PRK07109 1042878006599 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 1042878006600 putative NAD(P) binding site [chemical binding]; other site 1042878006601 active site 1042878006602 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1042878006603 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1042878006604 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1042878006605 active site 1042878006606 DNA binding site [nucleotide binding] 1042878006607 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1042878006608 DNA binding site [nucleotide binding] 1042878006609 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1042878006610 nucleotide binding site [chemical binding]; other site 1042878006611 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878006612 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878006613 active site 1042878006614 phosphorylation site [posttranslational modification] 1042878006615 intermolecular recognition site; other site 1042878006616 dimerization interface [polypeptide binding]; other site 1042878006617 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878006618 PAS domain; Region: PAS_9; pfam13426 1042878006619 putative active site [active] 1042878006620 heme pocket [chemical binding]; other site 1042878006621 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878006622 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878006623 dimer interface [polypeptide binding]; other site 1042878006624 phosphorylation site [posttranslational modification] 1042878006625 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878006626 ATP binding site [chemical binding]; other site 1042878006627 Mg2+ binding site [ion binding]; other site 1042878006628 G-X-G motif; other site 1042878006629 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878006630 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878006631 active site 1042878006632 phosphorylation site [posttranslational modification] 1042878006633 intermolecular recognition site; other site 1042878006634 dimerization interface [polypeptide binding]; other site 1042878006635 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1042878006636 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1042878006637 putative DNA binding site [nucleotide binding]; other site 1042878006638 putative homodimer interface [polypeptide binding]; other site 1042878006639 BON domain; Region: BON; pfam04972 1042878006640 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 1042878006641 Sm and related proteins; Region: Sm_like; cl00259 1042878006642 heptamer interface [polypeptide binding]; other site 1042878006643 Sm1 motif; other site 1042878006644 hexamer interface [polypeptide binding]; other site 1042878006645 RNA binding site [nucleotide binding]; other site 1042878006646 Sm2 motif; other site 1042878006647 flagellin; Validated; Region: PRK06819 1042878006648 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1042878006649 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1042878006650 FlaG protein; Region: FlaG; pfam03646 1042878006651 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1042878006652 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1042878006653 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1042878006654 flagellar protein FliS; Validated; Region: fliS; PRK05685 1042878006655 Flagellar protein FliT; Region: FliT; pfam05400 1042878006656 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1042878006657 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1042878006658 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 1042878006659 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1042878006660 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1042878006661 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1042878006662 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1042878006663 FliG C-terminal domain; Region: FliG_C; pfam01706 1042878006664 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1042878006665 Flagellar assembly protein FliH; Region: FliH; pfam02108 1042878006666 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 1042878006667 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 1042878006668 Walker A motif/ATP binding site; other site 1042878006669 Walker B motif; other site 1042878006670 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 1042878006671 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1042878006672 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 1042878006673 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1042878006674 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1042878006675 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1042878006676 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1042878006677 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1042878006678 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 1042878006679 dimer interface [polypeptide binding]; other site 1042878006680 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878006681 catalytic residue [active] 1042878006682 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1042878006683 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1042878006684 DXD motif; other site 1042878006685 PilZ domain; Region: PilZ; pfam07238 1042878006686 Protein of unknown function (DUF938); Region: DUF938; pfam06080 1042878006687 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1042878006688 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1042878006689 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 1042878006690 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1042878006691 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1042878006692 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1042878006693 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878006694 catalytic loop [active] 1042878006695 iron binding site [ion binding]; other site 1042878006696 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 1042878006697 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042878006698 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 1042878006699 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 1042878006700 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 1042878006701 active site 1042878006702 zinc binding site [ion binding]; other site 1042878006703 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1042878006704 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1042878006705 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1042878006706 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1042878006707 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878006708 Outer membrane efflux protein; Region: OEP; pfam02321 1042878006709 Putative zinc-finger; Region: zf-HC2; pfam13490 1042878006710 RNA polymerase sigma factor; Provisional; Region: PRK12520 1042878006711 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878006712 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042878006713 DNA binding residues [nucleotide binding] 1042878006714 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1042878006715 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878006716 Walker A motif; other site 1042878006717 ATP binding site [chemical binding]; other site 1042878006718 Walker B motif; other site 1042878006719 arginine finger; other site 1042878006720 Predicted esterase [General function prediction only]; Region: COG0400 1042878006721 putative hydrolase; Provisional; Region: PRK11460 1042878006722 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878006723 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878006724 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878006725 short chain dehydrogenase; Provisional; Region: PRK08265 1042878006726 classical (c) SDRs; Region: SDR_c; cd05233 1042878006727 NAD(P) binding site [chemical binding]; other site 1042878006728 active site 1042878006729 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1042878006730 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1042878006731 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042878006732 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1042878006733 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1042878006734 PAS fold; Region: PAS_4; pfam08448 1042878006735 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878006736 putative active site [active] 1042878006737 heme pocket [chemical binding]; other site 1042878006738 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1042878006739 cyclase homology domain; Region: CHD; cd07302 1042878006740 nucleotidyl binding site; other site 1042878006741 metal binding site [ion binding]; metal-binding site 1042878006742 dimer interface [polypeptide binding]; other site 1042878006743 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042878006744 MULE transposase domain; Region: MULE; pfam10551 1042878006745 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878006746 putative DNA binding site [nucleotide binding]; other site 1042878006747 putative Zn2+ binding site [ion binding]; other site 1042878006748 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 1042878006749 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878006750 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878006751 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878006752 putative effector binding pocket; other site 1042878006753 dimerization interface [polypeptide binding]; other site 1042878006754 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1042878006755 PLD-like domain; Region: PLDc_2; pfam13091 1042878006756 putative active site [active] 1042878006757 catalytic site [active] 1042878006758 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1042878006759 PLD-like domain; Region: PLDc_2; pfam13091 1042878006760 putative active site [active] 1042878006761 catalytic site [active] 1042878006762 lysine transporter; Provisional; Region: PRK10836 1042878006763 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1042878006764 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1042878006765 active site 1042878006766 RelB antitoxin; Region: RelB; cl01171 1042878006767 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1042878006768 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1042878006769 N-terminal plug; other site 1042878006770 ligand-binding site [chemical binding]; other site 1042878006771 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 1042878006772 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1042878006773 Na binding site [ion binding]; other site 1042878006774 putative substrate binding site [chemical binding]; other site 1042878006775 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 1042878006776 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1042878006777 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1042878006778 active site 1042878006779 catalytic site [active] 1042878006780 tetramer interface [polypeptide binding]; other site 1042878006781 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878006782 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878006783 DNA-binding site [nucleotide binding]; DNA binding site 1042878006784 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1042878006785 Domain of unknown function (DUF427); Region: DUF427; pfam04248 1042878006786 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878006787 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878006788 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878006789 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1042878006790 active site 1042878006791 catalytic residues [active] 1042878006792 metal binding site [ion binding]; metal-binding site 1042878006793 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878006794 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878006795 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1042878006796 putative dimerization interface [polypeptide binding]; other site 1042878006797 short chain dehydrogenase; Provisional; Region: PRK12828 1042878006798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878006799 NAD(P) binding site [chemical binding]; other site 1042878006800 active site 1042878006801 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878006802 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878006803 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1042878006804 substrate binding pocket [chemical binding]; other site 1042878006805 dimerization interface [polypeptide binding]; other site 1042878006806 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1042878006807 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1042878006808 potential catalytic triad [active] 1042878006809 conserved cys residue [active] 1042878006810 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1042878006811 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1042878006812 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 1042878006813 active site 1042878006814 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1042878006815 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1042878006816 Flavodoxin; Region: Flavodoxin_1; pfam00258 1042878006817 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1042878006818 conserved FAD binding motif [chemical binding]; other site 1042878006819 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like1; cd06200 1042878006820 FAD binding pocket [chemical binding]; other site 1042878006821 FAD binding motif [chemical binding]; other site 1042878006822 catalytic residues [active] 1042878006823 NAD binding pocket [chemical binding]; other site 1042878006824 phosphate binding motif [ion binding]; other site 1042878006825 beta-alpha-beta structure motif; other site 1042878006826 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1042878006827 ApbE family; Region: ApbE; pfam02424 1042878006828 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 1042878006829 Transthyretin-like family; Region: DUF290; pfam01060 1042878006830 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1042878006831 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 1042878006832 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1042878006833 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1042878006834 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042878006835 dimer interface [polypeptide binding]; other site 1042878006836 putative CheW interface [polypeptide binding]; other site 1042878006837 Predicted membrane protein [Function unknown]; Region: COG2261 1042878006838 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1042878006839 Transglycosylase; Region: Transgly; cl17702 1042878006840 HEC/Ndc80p family; Region: Ndc80_HEC; pfam03801 1042878006841 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1042878006842 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1042878006843 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1042878006844 active site 1042878006845 catalytic tetrad [active] 1042878006846 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1042878006847 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042878006848 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878006849 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878006850 NAD(P) binding site [chemical binding]; other site 1042878006851 active site 1042878006852 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1042878006853 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1042878006854 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1042878006855 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1042878006856 Probable transposase; Region: OrfB_IS605; pfam01385 1042878006857 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878006858 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1042878006859 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 1042878006860 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878006861 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878006862 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878006863 putative effector binding pocket; other site 1042878006864 dimerization interface [polypeptide binding]; other site 1042878006865 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 1042878006866 active site 1042878006867 catalytic triad [active] 1042878006868 oxyanion hole [active] 1042878006869 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042878006870 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1042878006871 C-terminal domain interface [polypeptide binding]; other site 1042878006872 GSH binding site (G-site) [chemical binding]; other site 1042878006873 dimer interface [polypeptide binding]; other site 1042878006874 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1042878006875 N-terminal domain interface [polypeptide binding]; other site 1042878006876 dimer interface [polypeptide binding]; other site 1042878006877 substrate binding pocket (H-site) [chemical binding]; other site 1042878006878 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1042878006879 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042878006880 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878006881 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1042878006882 dimerization interface [polypeptide binding]; other site 1042878006883 substrate binding pocket [chemical binding]; other site 1042878006884 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1042878006885 homotrimer interaction site [polypeptide binding]; other site 1042878006886 putative active site [active] 1042878006887 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042878006888 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1042878006889 active site 1042878006890 FMN binding site [chemical binding]; other site 1042878006891 substrate binding site [chemical binding]; other site 1042878006892 putative catalytic residue [active] 1042878006893 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1042878006894 homotrimer interaction site [polypeptide binding]; other site 1042878006895 putative active site [active] 1042878006896 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1042878006897 catalytic residue [active] 1042878006898 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878006899 dimerization interface [polypeptide binding]; other site 1042878006900 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042878006901 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878006902 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878006903 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878006904 acyl-activating enzyme (AAE) consensus motif; other site 1042878006905 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878006906 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1042878006907 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1042878006908 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1042878006909 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1042878006910 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1042878006911 putative active site [active] 1042878006912 putative NTP binding site [chemical binding]; other site 1042878006913 putative nucleic acid binding site [nucleotide binding]; other site 1042878006914 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878006915 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878006916 trimer interface [polypeptide binding]; other site 1042878006917 eyelet of channel; other site 1042878006918 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1042878006919 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1042878006920 benzoate transport; Region: 2A0115; TIGR00895 1042878006921 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878006922 putative substrate translocation pore; other site 1042878006923 argininosuccinate synthase; Validated; Region: PRK05370 1042878006924 argininosuccinate synthase; Provisional; Region: PRK13820 1042878006925 putative CoA-transferase; Provisional; Region: PRK11430 1042878006926 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878006927 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878006928 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042878006929 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878006930 substrate binding site [chemical binding]; other site 1042878006931 oxyanion hole (OAH) forming residues; other site 1042878006932 trimer interface [polypeptide binding]; other site 1042878006933 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878006934 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878006935 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1042878006936 putative dimerization interface [polypeptide binding]; other site 1042878006937 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1042878006938 dimer interface [polypeptide binding]; other site 1042878006939 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878006940 hypothetical protein; Provisional; Region: PRK04325 1042878006941 EamA-like transporter family; Region: EamA; pfam00892 1042878006942 NAD-dependent deacetylase; Provisional; Region: PRK05333 1042878006943 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 1042878006944 NAD+ binding site [chemical binding]; other site 1042878006945 substrate binding site [chemical binding]; other site 1042878006946 Zn binding site [ion binding]; other site 1042878006947 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 1042878006948 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1042878006949 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1042878006950 active site 1042878006951 nucleophile elbow; other site 1042878006952 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 1042878006953 Surface antigen; Region: Bac_surface_Ag; pfam01103 1042878006954 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1042878006955 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878006956 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878006957 Flagellar regulator YcgR; Region: YcgR; pfam07317 1042878006958 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1042878006959 PilZ domain; Region: PilZ; pfam07238 1042878006960 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878006961 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878006962 dimerization interface [polypeptide binding]; other site 1042878006963 LysE type translocator; Region: LysE; cl00565 1042878006964 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1042878006965 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1042878006966 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1042878006967 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1042878006968 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1042878006969 DNA binding site [nucleotide binding] 1042878006970 active site 1042878006971 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1042878006972 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1042878006973 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878006974 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1042878006975 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 1042878006976 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1042878006977 minor groove reading motif; other site 1042878006978 helix-hairpin-helix signature motif; other site 1042878006979 substrate binding pocket [chemical binding]; other site 1042878006980 active site 1042878006981 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1042878006982 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1042878006983 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1042878006984 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1042878006985 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1042878006986 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878006987 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878006988 active site 1042878006989 OPT oligopeptide transporter protein; Region: OPT; cl14607 1042878006990 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 1042878006991 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042878006992 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042878006993 MarR family; Region: MarR_2; pfam12802 1042878006994 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878006995 hypothetical protein; Provisional; Region: PRK11770 1042878006996 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1042878006997 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1042878006998 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1042878006999 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1042878007000 putative ligand binding site [chemical binding]; other site 1042878007001 NAD binding site [chemical binding]; other site 1042878007002 catalytic site [active] 1042878007003 HAMP domain; Region: HAMP; pfam00672 1042878007004 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878007005 dimer interface [polypeptide binding]; other site 1042878007006 phosphorylation site [posttranslational modification] 1042878007007 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878007008 ATP binding site [chemical binding]; other site 1042878007009 Mg2+ binding site [ion binding]; other site 1042878007010 G-X-G motif; other site 1042878007011 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042878007012 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878007013 active site 1042878007014 phosphorylation site [posttranslational modification] 1042878007015 intermolecular recognition site; other site 1042878007016 dimerization interface [polypeptide binding]; other site 1042878007017 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878007018 DNA binding site [nucleotide binding] 1042878007019 Glucokinase; Region: Glucokinase; cl17310 1042878007020 glucokinase, proteobacterial type; Region: glk; TIGR00749 1042878007021 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1042878007022 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1042878007023 putative active site [active] 1042878007024 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1042878007025 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1042878007026 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1042878007027 phosphogluconate dehydratase; Validated; Region: PRK09054 1042878007028 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1042878007029 mechanosensitive channel MscS; Provisional; Region: PRK10334 1042878007030 Conserved TM helix; Region: TM_helix; pfam05552 1042878007031 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1042878007032 H+ Antiporter protein; Region: 2A0121; TIGR00900 1042878007033 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878007034 putative substrate translocation pore; other site 1042878007035 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1042878007036 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1042878007037 N-terminal plug; other site 1042878007038 ligand-binding site [chemical binding]; other site 1042878007039 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1042878007040 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1042878007041 G1 box; other site 1042878007042 putative GEF interaction site [polypeptide binding]; other site 1042878007043 GTP/Mg2+ binding site [chemical binding]; other site 1042878007044 Switch I region; other site 1042878007045 G2 box; other site 1042878007046 G3 box; other site 1042878007047 Switch II region; other site 1042878007048 G4 box; other site 1042878007049 G5 box; other site 1042878007050 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1042878007051 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1042878007052 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1042878007053 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878007054 Walker A motif; other site 1042878007055 ATP binding site [chemical binding]; other site 1042878007056 Walker B motif; other site 1042878007057 arginine finger; other site 1042878007058 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1042878007059 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1042878007060 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1042878007061 DNA-binding site [nucleotide binding]; DNA binding site 1042878007062 RNA-binding motif; other site 1042878007063 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 1042878007064 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1042878007065 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 1042878007066 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1042878007067 P-loop; other site 1042878007068 Magnesium ion binding site [ion binding]; other site 1042878007069 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1042878007070 Magnesium ion binding site [ion binding]; other site 1042878007071 ParB-like nuclease domain; Region: ParB; smart00470 1042878007072 Phage integrase protein; Region: DUF3701; pfam12482 1042878007073 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1042878007074 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1042878007075 active site 1042878007076 catalytic residues [active] 1042878007077 DNA binding site [nucleotide binding] 1042878007078 Int/Topo IB signature motif; other site 1042878007079 Fic family protein [Function unknown]; Region: COG3177 1042878007080 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 1042878007081 Fic/DOC family; Region: Fic; pfam02661 1042878007082 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 1042878007083 SEC-C motif; Region: SEC-C; pfam02810 1042878007084 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042878007085 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878007086 metal binding site [ion binding]; metal-binding site 1042878007087 active site 1042878007088 I-site; other site 1042878007089 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1042878007090 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1042878007091 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878007092 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878007093 trimer interface [polypeptide binding]; other site 1042878007094 eyelet of channel; other site 1042878007095 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 1042878007096 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1042878007097 dimer interface [polypeptide binding]; other site 1042878007098 active site 1042878007099 hypothetical protein; Provisional; Region: PRK08204 1042878007100 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042878007101 active site 1042878007102 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1042878007103 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878007104 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1042878007105 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1042878007106 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1042878007107 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1042878007108 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 1042878007109 active site 1042878007110 dimer interface [polypeptide binding]; other site 1042878007111 metal binding site [ion binding]; metal-binding site 1042878007112 YciI-like protein; Reviewed; Region: PRK12863 1042878007113 YciI-like protein; Reviewed; Region: PRK12863 1042878007114 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 1042878007115 active site 1042878007116 oxalacetate binding site [chemical binding]; other site 1042878007117 citrylCoA binding site [chemical binding]; other site 1042878007118 coenzyme A binding site [chemical binding]; other site 1042878007119 catalytic triad [active] 1042878007120 acyl-CoA synthetase; Validated; Region: PRK06188 1042878007121 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878007122 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1042878007123 acyl-activating enzyme (AAE) consensus motif; other site 1042878007124 acyl-activating enzyme (AAE) consensus motif; other site 1042878007125 putative AMP binding site [chemical binding]; other site 1042878007126 putative active site [active] 1042878007127 putative CoA binding site [chemical binding]; other site 1042878007128 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1042878007129 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878007130 DNA-binding site [nucleotide binding]; DNA binding site 1042878007131 UTRA domain; Region: UTRA; pfam07702 1042878007132 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1042878007133 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878007134 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1042878007135 catalytic triad [active] 1042878007136 dimer interface [polypeptide binding]; other site 1042878007137 conserved cis-peptide bond; other site 1042878007138 Pirin-related protein [General function prediction only]; Region: COG1741 1042878007139 Pirin; Region: Pirin; pfam02678 1042878007140 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1042878007141 LysR family transcriptional regulator; Provisional; Region: PRK14997 1042878007142 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878007143 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 1042878007144 putative effector binding pocket; other site 1042878007145 putative dimerization interface [polypeptide binding]; other site 1042878007146 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1042878007147 Predicted membrane protein [Function unknown]; Region: COG2259 1042878007148 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878007149 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1042878007150 catalytic triad [active] 1042878007151 dimer interface [polypeptide binding]; other site 1042878007152 conserved cis-peptide bond; other site 1042878007153 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1042878007154 multidrug resistance protein MdtN; Provisional; Region: PRK10476 1042878007155 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878007156 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878007157 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1042878007158 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042878007159 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1042878007160 Pirin; Region: Pirin; pfam02678 1042878007161 Pirin-related protein [General function prediction only]; Region: COG1741 1042878007162 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1042878007163 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 1042878007164 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1042878007165 active site 1042878007166 metal binding site [ion binding]; metal-binding site 1042878007167 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 1042878007168 putative active site [active] 1042878007169 putative metal binding site [ion binding]; other site 1042878007170 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878007171 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878007172 FAD binding domain; Region: FAD_binding_3; pfam01494 1042878007173 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042878007174 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878007175 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878007176 DNA-binding site [nucleotide binding]; DNA binding site 1042878007177 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1042878007178 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1042878007179 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1042878007180 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 1042878007181 dimer interface [polypeptide binding]; other site 1042878007182 TPP-binding site [chemical binding]; other site 1042878007183 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1042878007184 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878007185 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878007186 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878007187 putative effector binding pocket; other site 1042878007188 dimerization interface [polypeptide binding]; other site 1042878007189 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878007190 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878007191 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878007192 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 1042878007193 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1042878007194 active site 1042878007195 oxalacetate binding site [chemical binding]; other site 1042878007196 citrylCoA binding site [chemical binding]; other site 1042878007197 coenzyme A binding site [chemical binding]; other site 1042878007198 catalytic triad [active] 1042878007199 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1042878007200 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 1042878007201 acyl-activating enzyme (AAE) consensus motif; other site 1042878007202 putative AMP binding site [chemical binding]; other site 1042878007203 putative active site [active] 1042878007204 putative CoA binding site [chemical binding]; other site 1042878007205 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1042878007206 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 1042878007207 active site 1042878007208 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1042878007209 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878007210 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878007211 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878007212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878007213 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1042878007214 putative dimerization interface [polypeptide binding]; other site 1042878007215 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878007216 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878007217 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1042878007218 active site 1042878007219 catalytic residues [active] 1042878007220 metal binding site [ion binding]; metal-binding site 1042878007221 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1042878007222 substrate binding site [chemical binding]; other site 1042878007223 ligand binding site [chemical binding]; other site 1042878007224 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1042878007225 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 1042878007226 substrate binding site [chemical binding]; other site 1042878007227 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878007228 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1042878007229 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878007230 ABC transporter signature motif; other site 1042878007231 Walker B; other site 1042878007232 D-loop; other site 1042878007233 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1042878007234 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878007235 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878007236 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1042878007237 putative dimerization interface [polypeptide binding]; other site 1042878007238 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1042878007239 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1042878007240 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878007241 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878007242 putative substrate translocation pore; other site 1042878007243 SnoaL-like domain; Region: SnoaL_3; pfam13474 1042878007244 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878007245 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878007246 Cupin domain; Region: Cupin_2; cl17218 1042878007247 N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase; Region: THT_Oxygenase_N; cd07267 1042878007248 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1042878007249 active site 1042878007250 metal binding site [ion binding]; metal-binding site 1042878007251 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878007252 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878007253 hypothetical protein; Provisional; Region: PRK08204 1042878007254 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042878007255 active site 1042878007256 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878007257 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878007258 trimer interface [polypeptide binding]; other site 1042878007259 eyelet of channel; other site 1042878007260 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1042878007261 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878007262 DNA-binding site [nucleotide binding]; DNA binding site 1042878007263 UTRA domain; Region: UTRA; pfam07702 1042878007264 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1042878007265 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 1042878007266 putative FMN binding site [chemical binding]; other site 1042878007267 NADPH bind site [chemical binding]; other site 1042878007268 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878007269 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1042878007270 VacJ like lipoprotein; Region: VacJ; cl01073 1042878007271 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1042878007272 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042878007273 Predicted flavoprotein [General function prediction only]; Region: COG0431 1042878007274 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878007275 MarR family; Region: MarR; pfam01047 1042878007276 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 1042878007277 Cupin domain; Region: Cupin_2; pfam07883 1042878007278 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878007279 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878007280 salicylate hydroxylase; Provisional; Region: PRK08163 1042878007281 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042878007282 benzoate transport; Region: 2A0115; TIGR00895 1042878007283 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878007284 putative substrate translocation pore; other site 1042878007285 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 1042878007286 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1042878007287 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1042878007288 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1042878007289 MarR family; Region: MarR; pfam01047 1042878007290 MarR family; Region: MarR_2; cl17246 1042878007291 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 1042878007292 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1042878007293 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1042878007294 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1042878007295 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1042878007296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878007297 NmrA-like family; Region: NmrA; pfam05368 1042878007298 NAD(P) binding site [chemical binding]; other site 1042878007299 active site 1042878007300 classical (c) SDRs; Region: SDR_c; cd05233 1042878007301 NAD(P) binding site [chemical binding]; other site 1042878007302 active site 1042878007303 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1042878007304 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1042878007305 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 1042878007306 ProQ/FINO family; Region: ProQ; pfam04352 1042878007307 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 1042878007308 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042878007309 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042878007310 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1042878007311 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1042878007312 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1042878007313 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1042878007314 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878007315 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1042878007316 active site 2 [active] 1042878007317 active site 1 [active] 1042878007318 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1042878007319 active site 1042878007320 catalytic site [active] 1042878007321 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1042878007322 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1042878007323 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1042878007324 carboxyltransferase (CT) interaction site; other site 1042878007325 biotinylation site [posttranslational modification]; other site 1042878007326 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878007327 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878007328 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878007329 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042878007330 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878007331 DNA-binding site [nucleotide binding]; DNA binding site 1042878007332 FCD domain; Region: FCD; pfam07729 1042878007333 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 1042878007334 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878007335 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042878007336 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878007337 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1042878007338 dimerization interface [polypeptide binding]; other site 1042878007339 substrate binding pocket [chemical binding]; other site 1042878007340 DUF35 OB-fold domain; Region: DUF35; pfam01796 1042878007341 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 1042878007342 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1042878007343 active site 1042878007344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878007345 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878007346 NAD(P) binding site [chemical binding]; other site 1042878007347 active site 1042878007348 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878007349 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878007350 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878007351 enoyl-CoA hydratase; Provisional; Region: PRK06494 1042878007352 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878007353 substrate binding site [chemical binding]; other site 1042878007354 oxyanion hole (OAH) forming residues; other site 1042878007355 trimer interface [polypeptide binding]; other site 1042878007356 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878007357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 1042878007358 beta-ketothiolase; Provisional; Region: PRK09051 1042878007359 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878007360 dimer interface [polypeptide binding]; other site 1042878007361 active site 1042878007362 Homeodomain-like domain; Region: HTH_23; pfam13384 1042878007363 Winged helix-turn helix; Region: HTH_29; pfam13551 1042878007364 Homeodomain-like domain; Region: HTH_32; pfam13565 1042878007365 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1042878007366 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878007367 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878007368 trimer interface [polypeptide binding]; other site 1042878007369 eyelet of channel; other site 1042878007370 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1042878007371 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878007372 Transposase; Region: HTH_Tnp_1; pfam01527 1042878007373 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878007374 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878007375 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878007376 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042878007377 NAD(P) binding site [chemical binding]; other site 1042878007378 catalytic residues [active] 1042878007379 tricarballylate dehydrogenase; Validated; Region: PRK08274 1042878007380 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 1042878007381 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1042878007382 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878007383 NAD(P) binding site [chemical binding]; other site 1042878007384 active site 1042878007385 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1042878007386 substrate binding site [chemical binding]; other site 1042878007387 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 1042878007388 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878007389 dimer interface [polypeptide binding]; other site 1042878007390 active site 1042878007391 YCII-related domain; Region: YCII; cl00999 1042878007392 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878007393 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878007394 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878007395 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878007396 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 1042878007397 NAD(P) binding site [chemical binding]; other site 1042878007398 catalytic residues [active] 1042878007399 tricarballylate dehydrogenase; Validated; Region: PRK08274 1042878007400 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1042878007401 L-aspartate oxidase; Provisional; Region: PRK06175 1042878007402 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878007403 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1042878007404 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878007405 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878007406 TM-ABC transporter signature motif; other site 1042878007407 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878007408 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878007409 TM-ABC transporter signature motif; other site 1042878007410 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878007411 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878007412 Walker A/P-loop; other site 1042878007413 ATP binding site [chemical binding]; other site 1042878007414 Q-loop/lid; other site 1042878007415 ABC transporter signature motif; other site 1042878007416 Walker B; other site 1042878007417 D-loop; other site 1042878007418 H-loop/switch region; other site 1042878007419 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878007420 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878007421 Walker A/P-loop; other site 1042878007422 ATP binding site [chemical binding]; other site 1042878007423 Q-loop/lid; other site 1042878007424 ABC transporter signature motif; other site 1042878007425 Walker B; other site 1042878007426 D-loop; other site 1042878007427 H-loop/switch region; other site 1042878007428 aconitate hydratase; Validated; Region: PRK09277 1042878007429 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1042878007430 substrate binding site [chemical binding]; other site 1042878007431 ligand binding site [chemical binding]; other site 1042878007432 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 1042878007433 substrate binding site [chemical binding]; other site 1042878007434 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878007435 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878007436 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 1042878007437 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1042878007438 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 1042878007439 Int/Topo IB signature motif; other site 1042878007440 AAA ATPase domain; Region: AAA_16; pfam13191 1042878007441 AAA domain; Region: AAA_22; pfam13401 1042878007442 AAA ATPase domain; Region: AAA_16; pfam13191 1042878007443 AAA domain; Region: AAA_22; pfam13401 1042878007444 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1042878007445 H-NS histone family; Region: Histone_HNS; pfam00816 1042878007446 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1042878007447 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1042878007448 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1042878007449 AAA domain; Region: AAA_14; pfam13173 1042878007450 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1042878007451 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1042878007452 AAA domain; Region: AAA_22; pfam13401 1042878007453 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878007454 Walker A motif; other site 1042878007455 ATP binding site [chemical binding]; other site 1042878007456 Walker B motif; other site 1042878007457 arginine finger; other site 1042878007458 Winged helix-turn helix; Region: HTH_29; pfam13551 1042878007459 Homeodomain-like domain; Region: HTH_32; pfam13565 1042878007460 Integrase core domain; Region: rve; pfam00665 1042878007461 Integrase core domain; Region: rve_3; pfam13683 1042878007462 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 1042878007463 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 1042878007464 putative metal binding site [ion binding]; other site 1042878007465 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1042878007466 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1042878007467 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1042878007468 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1042878007469 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042878007470 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042878007471 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 1042878007472 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1042878007473 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878007474 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878007475 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878007476 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1042878007477 CoA binding domain; Region: CoA_binding_2; pfam13380 1042878007478 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1042878007479 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1042878007480 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042878007481 classical (c) SDRs; Region: SDR_c; cd05233 1042878007482 NAD(P) binding site [chemical binding]; other site 1042878007483 active site 1042878007484 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1042878007485 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878007486 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1042878007487 catalytic triad [active] 1042878007488 dimer interface [polypeptide binding]; other site 1042878007489 conserved cis-peptide bond; other site 1042878007490 Pirin-related protein [General function prediction only]; Region: COG1741 1042878007491 Pirin; Region: Pirin; pfam02678 1042878007492 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1042878007493 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 1042878007494 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042878007495 PYR/PP interface [polypeptide binding]; other site 1042878007496 dimer interface [polypeptide binding]; other site 1042878007497 TPP binding site [chemical binding]; other site 1042878007498 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042878007499 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1042878007500 TPP-binding site [chemical binding]; other site 1042878007501 dimer interface [polypeptide binding]; other site 1042878007502 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878007503 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878007504 DNA-binding site [nucleotide binding]; DNA binding site 1042878007505 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1042878007506 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1042878007507 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878007508 Zn binding site [ion binding]; other site 1042878007509 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1042878007510 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878007511 putative substrate translocation pore; other site 1042878007512 Transposase; Region: HTH_Tnp_1; pfam01527 1042878007513 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042878007514 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1042878007515 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042878007516 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1042878007517 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042878007518 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1042878007519 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1042878007520 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1042878007521 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878007522 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878007523 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878007524 hypothetical protein; Provisional; Region: PRK08204 1042878007525 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042878007526 active site 1042878007527 SnoaL-like domain; Region: SnoaL_4; pfam13577 1042878007528 YCII-related domain; Region: YCII; cl00999 1042878007529 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1042878007530 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1042878007531 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 1042878007532 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1042878007533 active site 1042878007534 metal binding site [ion binding]; metal-binding site 1042878007535 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1042878007536 active site 1042878007537 metal binding site [ion binding]; metal-binding site 1042878007538 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878007539 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878007540 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1042878007541 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1042878007542 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1042878007543 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1042878007544 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 1042878007545 Cupin domain; Region: Cupin_2; pfam07883 1042878007546 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 1042878007547 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878007548 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1042878007549 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1042878007550 putative active site [active] 1042878007551 putative NTP binding site [chemical binding]; other site 1042878007552 putative nucleic acid binding site [nucleotide binding]; other site 1042878007553 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1042878007554 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878007555 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878007556 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878007557 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878007558 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878007559 trimer interface [polypeptide binding]; other site 1042878007560 eyelet of channel; other site 1042878007561 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878007562 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878007563 Cupin domain; Region: Cupin_2; cl17218 1042878007564 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 1042878007565 benzoate transport; Region: 2A0115; TIGR00895 1042878007566 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878007567 Domain of unknown function (DUF336); Region: DUF336; cl01249 1042878007568 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042878007569 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 1042878007570 putative C-terminal domain interface [polypeptide binding]; other site 1042878007571 putative GSH binding site (G-site) [chemical binding]; other site 1042878007572 putative dimer interface [polypeptide binding]; other site 1042878007573 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1042878007574 N-terminal domain interface [polypeptide binding]; other site 1042878007575 dimer interface [polypeptide binding]; other site 1042878007576 substrate binding pocket (H-site) [chemical binding]; other site 1042878007577 Helix-turn-helix domain; Region: HTH_18; pfam12833 1042878007578 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878007579 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1042878007580 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878007581 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042878007582 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878007583 putative DNA binding site [nucleotide binding]; other site 1042878007584 putative Zn2+ binding site [ion binding]; other site 1042878007585 AsnC family; Region: AsnC_trans_reg; pfam01037 1042878007586 3-isopropylmalate dehydratase, small subunit; Region: leuD; TIGR00171 1042878007587 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 1042878007588 substrate binding site [chemical binding]; other site 1042878007589 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1042878007590 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1042878007591 substrate binding site [chemical binding]; other site 1042878007592 ligand binding site [chemical binding]; other site 1042878007593 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878007594 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878007595 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 1042878007596 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1042878007597 active site 1042878007598 oxalacetate binding site [chemical binding]; other site 1042878007599 citrylCoA binding site [chemical binding]; other site 1042878007600 coenzyme A binding site [chemical binding]; other site 1042878007601 catalytic triad [active] 1042878007602 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1042878007603 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878007604 putative substrate translocation pore; other site 1042878007605 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878007606 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878007607 eyelet of channel; other site 1042878007608 trimer interface [polypeptide binding]; other site 1042878007609 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878007610 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878007611 DNA-binding site [nucleotide binding]; DNA binding site 1042878007612 FCD domain; Region: FCD; pfam07729 1042878007613 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 1042878007614 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 1042878007615 dimer interface [polypeptide binding]; other site 1042878007616 TPP-binding site [chemical binding]; other site 1042878007617 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 1042878007618 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878007619 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878007620 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878007621 trimer interface [polypeptide binding]; other site 1042878007622 eyelet of channel; other site 1042878007623 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878007624 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1042878007625 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042878007626 active site 1042878007627 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 1042878007628 putative substrate binding pocket [chemical binding]; other site 1042878007629 trimer interface [polypeptide binding]; other site 1042878007630 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878007631 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878007632 trimer interface [polypeptide binding]; other site 1042878007633 eyelet of channel; other site 1042878007634 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878007635 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1042878007636 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1042878007637 putative dimerization interface [polypeptide binding]; other site 1042878007638 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1042878007639 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1042878007640 DNA binding site [nucleotide binding] 1042878007641 domain linker motif; other site 1042878007642 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1042878007643 dimerization interface [polypeptide binding]; other site 1042878007644 ligand binding site [chemical binding]; other site 1042878007645 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042878007646 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1042878007647 NAD(P) binding site [chemical binding]; other site 1042878007648 Cupin domain; Region: Cupin_2; cl17218 1042878007649 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878007650 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1042878007651 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 1042878007652 active site 1042878007653 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878007654 hypothetical protein; Provisional; Region: PRK08204 1042878007655 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042878007656 active site 1042878007657 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878007658 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878007659 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878007660 putative effector binding pocket; other site 1042878007661 dimerization interface [polypeptide binding]; other site 1042878007662 hypothetical protein; Provisional; Region: PRK08204 1042878007663 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042878007664 active site 1042878007665 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878007666 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878007667 trimer interface [polypeptide binding]; other site 1042878007668 eyelet of channel; other site 1042878007669 Transposase domain (DUF772); Region: DUF772; pfam05598 1042878007670 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1042878007671 DNA-binding site [nucleotide binding]; DNA binding site 1042878007672 RNA-binding motif; other site 1042878007673 H-NS histone family; Region: Histone_HNS; pfam00816 1042878007674 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1042878007675 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042878007676 binding surface 1042878007677 TPR repeat; Region: TPR_11; pfam13414 1042878007678 TPR motif; other site 1042878007679 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1042878007680 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1042878007681 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1042878007682 putative DNA binding site [nucleotide binding]; other site 1042878007683 putative homodimer interface [polypeptide binding]; other site 1042878007684 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1042878007685 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1042878007686 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1042878007687 active site 1042878007688 DNA binding site [nucleotide binding] 1042878007689 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1042878007690 DNA binding site [nucleotide binding] 1042878007691 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1042878007692 nucleotide binding site [chemical binding]; other site 1042878007693 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1042878007694 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 1042878007695 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1042878007696 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1042878007697 putative active site [active] 1042878007698 putative PHP Thumb interface [polypeptide binding]; other site 1042878007699 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1042878007700 generic binding surface II; other site 1042878007701 generic binding surface I; other site 1042878007702 DNA Polymerase Y-family; Region: PolY_like; cd03468 1042878007703 active site 1042878007704 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1042878007705 DNA binding site [nucleotide binding] 1042878007706 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1042878007707 LabA_like proteins; Region: LabA_like; cd06167 1042878007708 putative metal binding site [ion binding]; other site 1042878007709 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1042878007710 Protein of unknown function (DUF328); Region: DUF328; cl01143 1042878007711 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878007712 active site 1042878007713 Int/Topo IB signature motif; other site 1042878007714 DNA binding site [nucleotide binding] 1042878007715 Bacterial DNA-binding protein; Region: Bac_DNA_binding; pfam00216 1042878007716 IHF dimer interface [polypeptide binding]; other site 1042878007717 IHF - DNA interface [nucleotide binding]; other site 1042878007718 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1042878007719 Ligand Binding Site [chemical binding]; other site 1042878007720 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878007721 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878007722 Walker A/P-loop; other site 1042878007723 Walker A/P-loop; other site 1042878007724 ATP binding site [chemical binding]; other site 1042878007725 ATP binding site [chemical binding]; other site 1042878007726 Q-loop/lid; other site 1042878007727 ABC transporter signature motif; other site 1042878007728 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878007729 ABC transporter signature motif; other site 1042878007730 Walker B; other site 1042878007731 D-loop; other site 1042878007732 H-loop/switch region; other site 1042878007733 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1042878007734 active site 1042878007735 metal binding site [ion binding]; metal-binding site 1042878007736 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1042878007737 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 1042878007738 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 1042878007739 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 1042878007740 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878007741 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1042878007742 Walker A motif; other site 1042878007743 ATP binding site [chemical binding]; other site 1042878007744 Walker B motif; other site 1042878007745 arginine finger; other site 1042878007746 Domain of unknown function (DUF4313); Region: DUF4313; pfam14190 1042878007747 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1042878007748 DNA polymerase III beta subunit, central domain; Region: DNA_pol3_beta_2; pfam02767 1042878007749 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1042878007750 PLD-like domain; Region: PLDc_2; pfam13091 1042878007751 putative active site [active] 1042878007752 putative active site [active] 1042878007753 catalytic site [active] 1042878007754 catalytic site [active] 1042878007755 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 1042878007756 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 1042878007757 ATP binding site [chemical binding]; other site 1042878007758 substrate interface [chemical binding]; other site 1042878007759 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 1042878007760 PRTRC system protein A; Region: PRTRC_A; TIGR03735 1042878007761 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 1042878007762 PRTRC system protein B; Region: PRTRC_B; TIGR03737 1042878007763 PRTRC system protein F; Region: PRTRC_F; TIGR03742 1042878007764 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 1042878007765 PRTRC system protein C; Region: PRTRC_C; TIGR03738 1042878007766 PRTRC system protein E; Region: PRTRC_E; TIGR03741 1042878007767 ParB-like nuclease domain; Region: ParBc; pfam02195 1042878007768 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 1042878007769 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878007770 Walker A/P-loop; other site 1042878007771 ATP binding site [chemical binding]; other site 1042878007772 aldolase II superfamily protein; Provisional; Region: PRK07044 1042878007773 intersubunit interface [polypeptide binding]; other site 1042878007774 active site 1042878007775 Zn2+ binding site [ion binding]; other site 1042878007776 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 1042878007777 homotrimer interaction site [polypeptide binding]; other site 1042878007778 putative active site [active] 1042878007779 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1042878007780 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1042878007781 NAD binding site [chemical binding]; other site 1042878007782 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1042878007783 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1042878007784 ligand binding site [chemical binding]; other site 1042878007785 homodimer interface [polypeptide binding]; other site 1042878007786 NAD(P) binding site [chemical binding]; other site 1042878007787 trimer interface B [polypeptide binding]; other site 1042878007788 trimer interface A [polypeptide binding]; other site 1042878007789 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1042878007790 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1042878007791 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1042878007792 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042878007793 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878007794 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878007795 DNA-binding site [nucleotide binding]; DNA binding site 1042878007796 FCD domain; Region: FCD; pfam07729 1042878007797 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878007798 putative substrate translocation pore; other site 1042878007799 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1042878007800 succinic semialdehyde dehydrogenase; Region: PLN02278 1042878007801 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1042878007802 tetramerization interface [polypeptide binding]; other site 1042878007803 NAD(P) binding site [chemical binding]; other site 1042878007804 catalytic residues [active] 1042878007805 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878007806 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 1042878007807 homotrimer interaction site [polypeptide binding]; other site 1042878007808 putative active site [active] 1042878007809 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1042878007810 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1042878007811 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1042878007812 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042878007813 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042878007814 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878007815 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1042878007816 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1042878007817 Amidase; Region: Amidase; cl11426 1042878007818 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878007819 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1042878007820 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1042878007821 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878007822 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 1042878007823 putative dimerization interface [polypeptide binding]; other site 1042878007824 Divergent AAA domain; Region: AAA_4; pfam04326 1042878007825 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1042878007826 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042878007827 nucleotide binding region [chemical binding]; other site 1042878007828 ATP-binding site [chemical binding]; other site 1042878007829 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1042878007830 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1042878007831 Probable transposase; Region: OrfB_IS605; pfam01385 1042878007832 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878007833 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 1042878007834 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1042878007835 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; pfam01223 1042878007836 active site 1042878007837 substrate binding site [chemical binding]; other site 1042878007838 Mg2+ binding site [ion binding]; other site 1042878007839 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 1042878007840 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1042878007841 active site 1042878007842 catalytic residues [active] 1042878007843 DNA binding site [nucleotide binding] 1042878007844 Int/Topo IB signature motif; other site 1042878007845 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 1042878007846 PRTRC system protein D; Region: PRTRC_D; TIGR03739 1042878007847 Mg binding site [ion binding]; other site 1042878007848 nucleotide binding site [chemical binding]; other site 1042878007849 putative protofilament interface [polypeptide binding]; other site 1042878007850 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 1042878007851 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1042878007852 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1042878007853 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 1042878007854 dimer interface [polypeptide binding]; other site 1042878007855 ssDNA binding site [nucleotide binding]; other site 1042878007856 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1042878007857 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1042878007858 PilS N terminal; Region: PilS; pfam08805 1042878007859 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1042878007860 Type II/IV secretion system protein; Region: T2SE; pfam00437 1042878007861 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1042878007862 Walker A motif; other site 1042878007863 ATP binding site [chemical binding]; other site 1042878007864 Walker B motif; other site 1042878007865 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 1042878007866 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 1042878007867 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1042878007868 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1042878007869 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1042878007870 catalytic residue [active] 1042878007871 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1042878007872 VirB7 interaction site; other site 1042878007873 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1042878007874 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1042878007875 catalytic residue [active] 1042878007876 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1042878007877 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 1042878007878 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1042878007879 VirB7 interaction site; other site 1042878007880 VirB8 protein; Region: VirB8; pfam04335 1042878007881 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 1042878007882 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1042878007883 Walker A motif; other site 1042878007884 hexamer interface [polypeptide binding]; other site 1042878007885 ATP binding site [chemical binding]; other site 1042878007886 Walker B motif; other site 1042878007887 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 1042878007888 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1042878007889 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1042878007890 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1042878007891 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1042878007892 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1042878007893 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1042878007894 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1042878007895 Domain of unknown function (DUF4400); Region: DUF4400; pfam14348 1042878007896 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1042878007897 Family description; Region: UvrD_C_2; pfam13538 1042878007898 HTH domain; Region: HTH_22; pfam13309 1042878007899 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878007900 putative DNA binding site [nucleotide binding]; other site 1042878007901 Initiator Replication protein; Region: Rep_3; pfam01051 1042878007902 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1042878007903 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1042878007904 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878007905 Walker A motif; other site 1042878007906 ATP binding site [chemical binding]; other site 1042878007907 Walker B motif; other site 1042878007908 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1042878007909 arginine finger; other site 1042878007910 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 1042878007911 DnaA box-binding interface [nucleotide binding]; other site 1042878007912 DNA polymerase III subunit beta; Validated; Region: PRK05643 1042878007913 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 1042878007914 putative DNA binding surface [nucleotide binding]; other site 1042878007915 dimer interface [polypeptide binding]; other site 1042878007916 beta-clamp/clamp loader binding surface; other site 1042878007917 beta-clamp/translesion DNA polymerase binding surface; other site 1042878007918 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1042878007919 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878007920 ATP binding site [chemical binding]; other site 1042878007921 Mg2+ binding site [ion binding]; other site 1042878007922 G-X-G motif; other site 1042878007923 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 1042878007924 anchoring element; other site 1042878007925 dimer interface [polypeptide binding]; other site 1042878007926 ATP binding site [chemical binding]; other site 1042878007927 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 1042878007928 active site 1042878007929 putative metal-binding site [ion binding]; other site 1042878007930 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1042878007931 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1042878007932 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1042878007933 catalytic residues [active] 1042878007934 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1042878007935 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1042878007936 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1042878007937 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1042878007938 Walker A/P-loop; other site 1042878007939 ATP binding site [chemical binding]; other site 1042878007940 Q-loop/lid; other site 1042878007941 ABC transporter signature motif; other site 1042878007942 Walker B; other site 1042878007943 D-loop; other site 1042878007944 H-loop/switch region; other site 1042878007945 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1042878007946 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878007947 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1042878007948 TM-ABC transporter signature motif; other site 1042878007949 Uncharacterized ABC-type transport system, permease component [General function prediction only]; Region: COG1079 1042878007950 TM-ABC transporter signature motif; other site 1042878007951 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878007952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878007953 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878007954 putative effector binding pocket; other site 1042878007955 dimerization interface [polypeptide binding]; other site 1042878007956 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878007957 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878007958 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878007959 putative effector binding pocket; other site 1042878007960 dimerization interface [polypeptide binding]; other site 1042878007961 adenosine deaminase; Provisional; Region: PRK09358 1042878007962 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1042878007963 active site 1042878007964 S-formylglutathione hydrolase; Region: PLN02442 1042878007965 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1042878007966 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1042878007967 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1042878007968 FMN-binding pocket [chemical binding]; other site 1042878007969 flavin binding motif; other site 1042878007970 phosphate binding motif [ion binding]; other site 1042878007971 beta-alpha-beta structure motif; other site 1042878007972 NAD binding pocket [chemical binding]; other site 1042878007973 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878007974 catalytic loop [active] 1042878007975 iron binding site [ion binding]; other site 1042878007976 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042878007977 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 1042878007978 putative C-terminal domain interface [polypeptide binding]; other site 1042878007979 putative GSH binding site (G-site) [chemical binding]; other site 1042878007980 putative dimer interface [polypeptide binding]; other site 1042878007981 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1042878007982 putative N-terminal domain interface [polypeptide binding]; other site 1042878007983 putative dimer interface [polypeptide binding]; other site 1042878007984 putative substrate binding pocket (H-site) [chemical binding]; other site 1042878007985 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042878007986 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1042878007987 hydrophobic ligand binding site; other site 1042878007988 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042878007989 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1042878007990 hydrophobic ligand binding site; other site 1042878007991 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042878007992 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1042878007993 [2Fe-2S] cluster binding site [ion binding]; other site 1042878007994 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1042878007995 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1042878007996 substrate binding site [chemical binding]; other site 1042878007997 catalytic Zn binding site [ion binding]; other site 1042878007998 NAD binding site [chemical binding]; other site 1042878007999 structural Zn binding site [ion binding]; other site 1042878008000 dimer interface [polypeptide binding]; other site 1042878008001 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1042878008002 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1042878008003 active site 1042878008004 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 1042878008005 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878008006 PAS domain; Region: PAS_9; pfam13426 1042878008007 putative active site [active] 1042878008008 heme pocket [chemical binding]; other site 1042878008009 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042878008010 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878008011 metal binding site [ion binding]; metal-binding site 1042878008012 active site 1042878008013 I-site; other site 1042878008014 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1042878008015 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1042878008016 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1042878008017 putative active site [active] 1042878008018 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1042878008019 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042878008020 ligand binding site [chemical binding]; other site 1042878008021 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1042878008022 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878008023 putative substrate translocation pore; other site 1042878008024 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1042878008025 short chain dehydrogenase; Provisional; Region: PRK12829 1042878008026 classical (c) SDRs; Region: SDR_c; cd05233 1042878008027 NAD(P) binding site [chemical binding]; other site 1042878008028 active site 1042878008029 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878008030 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878008031 DNA-binding site [nucleotide binding]; DNA binding site 1042878008032 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1042878008033 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878008034 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878008035 non-specific DNA binding site [nucleotide binding]; other site 1042878008036 salt bridge; other site 1042878008037 sequence-specific DNA binding site [nucleotide binding]; other site 1042878008038 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 1042878008039 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1042878008040 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042878008041 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878008042 putative substrate translocation pore; other site 1042878008043 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878008044 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878008045 non-specific DNA binding site [nucleotide binding]; other site 1042878008046 salt bridge; other site 1042878008047 sequence-specific DNA binding site [nucleotide binding]; other site 1042878008048 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 1042878008049 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 1042878008050 putative active site [active] 1042878008051 putative metal binding site [ion binding]; other site 1042878008052 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042878008053 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042878008054 Walker A/P-loop; other site 1042878008055 ATP binding site [chemical binding]; other site 1042878008056 Q-loop/lid; other site 1042878008057 ABC transporter signature motif; other site 1042878008058 Walker B; other site 1042878008059 D-loop; other site 1042878008060 H-loop/switch region; other site 1042878008061 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042878008062 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 1042878008063 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878008064 putative PBP binding loops; other site 1042878008065 dimer interface [polypeptide binding]; other site 1042878008066 ABC-ATPase subunit interface; other site 1042878008067 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042878008068 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878008069 substrate binding pocket [chemical binding]; other site 1042878008070 membrane-bound complex binding site; other site 1042878008071 hinge residues; other site 1042878008072 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878008073 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1042878008074 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878008075 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1042878008076 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 1042878008077 homodimer interface [polypeptide binding]; other site 1042878008078 chemical substrate binding site [chemical binding]; other site 1042878008079 oligomer interface [polypeptide binding]; other site 1042878008080 metal binding site [ion binding]; metal-binding site 1042878008081 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 1042878008082 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1042878008083 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878008084 S-adenosylmethionine binding site [chemical binding]; other site 1042878008085 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1042878008086 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 1042878008087 DNA binding residues [nucleotide binding] 1042878008088 putative dimer interface [polypeptide binding]; other site 1042878008089 putative metal binding residues [ion binding]; other site 1042878008090 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042878008091 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 1042878008092 Protein of unknown function DUF72; Region: DUF72; pfam01904 1042878008093 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1042878008094 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1042878008095 ATP binding site [chemical binding]; other site 1042878008096 Mg++ binding site [ion binding]; other site 1042878008097 motif III; other site 1042878008098 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042878008099 nucleotide binding region [chemical binding]; other site 1042878008100 ATP-binding site [chemical binding]; other site 1042878008101 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1042878008102 putative RNA binding site [nucleotide binding]; other site 1042878008103 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 1042878008104 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878008105 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878008106 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 1042878008107 FOG: CBS domain [General function prediction only]; Region: COG0517 1042878008108 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042878008109 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1042878008110 iron-sulfur cluster [ion binding]; other site 1042878008111 [2Fe-2S] cluster binding site [ion binding]; other site 1042878008112 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1042878008113 hydrophobic ligand binding site; other site 1042878008114 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1042878008115 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 1042878008116 catalytic residues [active] 1042878008117 dimer interface [polypeptide binding]; other site 1042878008118 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1042878008119 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042878008120 glutathionine S-transferase; Provisional; Region: PRK10542 1042878008121 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1042878008122 C-terminal domain interface [polypeptide binding]; other site 1042878008123 GSH binding site (G-site) [chemical binding]; other site 1042878008124 dimer interface [polypeptide binding]; other site 1042878008125 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1042878008126 dimer interface [polypeptide binding]; other site 1042878008127 N-terminal domain interface [polypeptide binding]; other site 1042878008128 substrate binding pocket (H-site) [chemical binding]; other site 1042878008129 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1042878008130 dihydropyrimidinase; Provisional; Region: PRK13404 1042878008131 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 1042878008132 tetramer interface [polypeptide binding]; other site 1042878008133 active site 1042878008134 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1042878008135 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1042878008136 Beta-lactamase; Region: Beta-lactamase; pfam00144 1042878008137 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878008138 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878008139 putative substrate translocation pore; other site 1042878008140 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042878008141 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878008142 DNA-binding site [nucleotide binding]; DNA binding site 1042878008143 FCD domain; Region: FCD; pfam07729 1042878008144 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878008145 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878008146 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1042878008147 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1042878008148 metal binding site [ion binding]; metal-binding site 1042878008149 putative dimer interface [polypeptide binding]; other site 1042878008150 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1042878008151 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042878008152 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878008153 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878008154 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878008155 putative substrate translocation pore; other site 1042878008156 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878008157 MarR family; Region: MarR; pfam01047 1042878008158 EamA-like transporter family; Region: EamA; pfam00892 1042878008159 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1042878008160 EamA-like transporter family; Region: EamA; pfam00892 1042878008161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878008162 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042878008163 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878008164 active site 1042878008165 phosphorylation site [posttranslational modification] 1042878008166 intermolecular recognition site; other site 1042878008167 dimerization interface [polypeptide binding]; other site 1042878008168 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878008169 DNA binding site [nucleotide binding] 1042878008170 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878008171 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878008172 trimer interface [polypeptide binding]; other site 1042878008173 eyelet of channel; other site 1042878008174 cell division topological specificity factor MinE; Provisional; Region: PRK13989 1042878008175 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1042878008176 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 1042878008177 Switch I; other site 1042878008178 Switch II; other site 1042878008179 septum formation inhibitor; Reviewed; Region: PRK01973 1042878008180 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1042878008181 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1042878008182 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1042878008183 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 1042878008184 oligomer interface [polypeptide binding]; other site 1042878008185 metal binding site [ion binding]; metal-binding site 1042878008186 metal binding site [ion binding]; metal-binding site 1042878008187 putative Cl binding site [ion binding]; other site 1042878008188 basic sphincter; other site 1042878008189 hydrophobic gate; other site 1042878008190 periplasmic entrance; other site 1042878008191 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1042878008192 Sel1 repeat; Region: Sel1; cl02723 1042878008193 Sel1-like repeats; Region: SEL1; smart00671 1042878008194 Sel1-like repeats; Region: SEL1; smart00671 1042878008195 Sel1-like repeats; Region: SEL1; smart00671 1042878008196 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 1042878008197 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1042878008198 DNA binding residues [nucleotide binding] 1042878008199 putative dimer interface [polypeptide binding]; other site 1042878008200 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878008201 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878008202 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042878008203 dimerization interface [polypeptide binding]; other site 1042878008204 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878008205 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 1042878008206 putative active site [active] 1042878008207 Zn binding site [ion binding]; other site 1042878008208 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 1042878008209 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1042878008210 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 1042878008211 homodimer interface [polypeptide binding]; other site 1042878008212 active site 1042878008213 TDP-binding site; other site 1042878008214 acceptor substrate-binding pocket; other site 1042878008215 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1042878008216 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1042878008217 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1042878008218 G1 box; other site 1042878008219 GTP/Mg2+ binding site [chemical binding]; other site 1042878008220 Switch I region; other site 1042878008221 G2 box; other site 1042878008222 Switch II region; other site 1042878008223 G3 box; other site 1042878008224 G4 box; other site 1042878008225 G5 box; other site 1042878008226 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1042878008227 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 1042878008228 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1042878008229 CoenzymeA binding site [chemical binding]; other site 1042878008230 subunit interaction site [polypeptide binding]; other site 1042878008231 PHB binding site; other site 1042878008232 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1042878008233 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878008234 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1042878008235 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878008236 S-adenosylmethionine binding site [chemical binding]; other site 1042878008237 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1042878008238 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1042878008239 GatB domain; Region: GatB_Yqey; smart00845 1042878008240 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1042878008241 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042878008242 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1042878008243 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1042878008244 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1042878008245 rod shape-determining protein MreB; Provisional; Region: PRK13927 1042878008246 MreB and similar proteins; Region: MreB_like; cd10225 1042878008247 nucleotide binding site [chemical binding]; other site 1042878008248 Mg binding site [ion binding]; other site 1042878008249 putative protofilament interaction site [polypeptide binding]; other site 1042878008250 RodZ interaction site [polypeptide binding]; other site 1042878008251 rod shape-determining protein MreC; Provisional; Region: PRK13922 1042878008252 rod shape-determining protein MreC; Region: MreC; pfam04085 1042878008253 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 1042878008254 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1042878008255 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1042878008256 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1042878008257 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1042878008258 Protein of unknown function, DUF484; Region: DUF484; cl17449 1042878008259 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1042878008260 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878008261 active site 1042878008262 DNA binding site [nucleotide binding] 1042878008263 Int/Topo IB signature motif; other site 1042878008264 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042878008265 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878008266 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1042878008267 dimerization interface [polypeptide binding]; other site 1042878008268 substrate binding pocket [chemical binding]; other site 1042878008269 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 1042878008270 lipoate-protein ligase B; Provisional; Region: PRK14343 1042878008271 lipoyl synthase; Provisional; Region: PRK05481 1042878008272 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878008273 FeS/SAM binding site; other site 1042878008274 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1042878008275 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1042878008276 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1042878008277 LamB/YcsF family protein; Provisional; Region: PRK05406 1042878008278 Predicted membrane protein [Function unknown]; Region: COG3819 1042878008279 Predicted membrane protein [Function unknown]; Region: COG3817 1042878008280 Protein of unknown function (DUF979); Region: DUF979; pfam06166 1042878008281 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 1042878008282 putative substrate binding pocket [chemical binding]; other site 1042878008283 AC domain interface; other site 1042878008284 catalytic triad [active] 1042878008285 AB domain interface; other site 1042878008286 interchain disulfide; other site 1042878008287 Predicted integral membrane protein [Function unknown]; Region: COG5652 1042878008288 Protein of unknown function (DUF330); Region: DUF330; cl01135 1042878008289 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1042878008290 mce related protein; Region: MCE; pfam02470 1042878008291 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1042878008292 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1042878008293 Walker A/P-loop; other site 1042878008294 ATP binding site [chemical binding]; other site 1042878008295 Q-loop/lid; other site 1042878008296 ABC transporter signature motif; other site 1042878008297 Walker B; other site 1042878008298 D-loop; other site 1042878008299 H-loop/switch region; other site 1042878008300 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1042878008301 Permease; Region: Permease; pfam02405 1042878008302 biotin--protein ligase; Provisional; Region: PRK06955 1042878008303 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1042878008304 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1042878008305 Type III pantothenate kinase; Region: Pan_kinase; cl17198 1042878008306 Sporulation related domain; Region: SPOR; pfam05036 1042878008307 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1042878008308 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1042878008309 active site 1042878008310 nucleotide binding site [chemical binding]; other site 1042878008311 HIGH motif; other site 1042878008312 KMSKS motif; other site 1042878008313 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1042878008314 dinuclear metal binding motif [ion binding]; other site 1042878008315 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1042878008316 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1042878008317 active site 1042878008318 nucleophile elbow; other site 1042878008319 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042878008320 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878008321 substrate binding site [chemical binding]; other site 1042878008322 oxyanion hole (OAH) forming residues; other site 1042878008323 trimer interface [polypeptide binding]; other site 1042878008324 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 1042878008325 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878008326 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878008327 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878008328 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878008329 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878008330 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878008331 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1042878008332 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1042878008333 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1042878008334 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 1042878008335 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 1042878008336 active site residue [active] 1042878008337 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1042878008338 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1042878008339 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1042878008340 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 1042878008341 substrate binding pocket [chemical binding]; other site 1042878008342 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 1042878008343 B12 binding site [chemical binding]; other site 1042878008344 cobalt ligand [ion binding]; other site 1042878008345 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1042878008346 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878008347 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878008348 active site 1042878008349 phosphorylation site [posttranslational modification] 1042878008350 intermolecular recognition site; other site 1042878008351 dimerization interface [polypeptide binding]; other site 1042878008352 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878008353 DNA binding residues [nucleotide binding] 1042878008354 dimerization interface [polypeptide binding]; other site 1042878008355 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878008356 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878008357 active site 1042878008358 phosphorylation site [posttranslational modification] 1042878008359 intermolecular recognition site; other site 1042878008360 dimerization interface [polypeptide binding]; other site 1042878008361 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG5278 1042878008362 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878008363 Histidine kinase; Region: HisKA_3; pfam07730 1042878008364 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878008365 ATP binding site [chemical binding]; other site 1042878008366 Mg2+ binding site [ion binding]; other site 1042878008367 G-X-G motif; other site 1042878008368 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1042878008369 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 1042878008370 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1042878008371 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1042878008372 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1042878008373 active site 1042878008374 HIGH motif; other site 1042878008375 KMSK motif region; other site 1042878008376 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1042878008377 tRNA binding surface [nucleotide binding]; other site 1042878008378 anticodon binding site; other site 1042878008379 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 1042878008380 Sporulation related domain; Region: SPOR; pfam05036 1042878008381 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1042878008382 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1042878008383 catalytic residues [active] 1042878008384 hinge region; other site 1042878008385 alpha helical domain; other site 1042878008386 short chain dehydrogenase; Provisional; Region: PRK07024 1042878008387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878008388 NAD(P) binding site [chemical binding]; other site 1042878008389 active site 1042878008390 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1042878008391 intersubunit interface [polypeptide binding]; other site 1042878008392 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1042878008393 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1042878008394 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1042878008395 DNA binding residues [nucleotide binding] 1042878008396 putative dimer interface [polypeptide binding]; other site 1042878008397 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1042878008398 CoenzymeA binding site [chemical binding]; other site 1042878008399 subunit interaction site [polypeptide binding]; other site 1042878008400 PHB binding site; other site 1042878008401 isovaleryl-CoA dehydrogenase; Region: PLN02519 1042878008402 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1042878008403 substrate binding site [chemical binding]; other site 1042878008404 FAD binding site [chemical binding]; other site 1042878008405 catalytic base [active] 1042878008406 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1042878008407 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 1042878008408 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 1042878008409 active site clefts [active] 1042878008410 zinc binding site [ion binding]; other site 1042878008411 dimer interface [polypeptide binding]; other site 1042878008412 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1042878008413 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878008414 dimer interface [polypeptide binding]; other site 1042878008415 active site 1042878008416 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1042878008417 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1042878008418 NADP binding site [chemical binding]; other site 1042878008419 homodimer interface [polypeptide binding]; other site 1042878008420 active site 1042878008421 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878008422 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878008423 active site 1042878008424 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1042878008425 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 1042878008426 putative catalytic residue [active] 1042878008427 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1042878008428 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042878008429 active site 1042878008430 motif I; other site 1042878008431 motif II; other site 1042878008432 hypothetical protein; Provisional; Region: PRK01842 1042878008433 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 1042878008434 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042878008435 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 1042878008436 putative C-terminal domain interface [polypeptide binding]; other site 1042878008437 putative GSH binding site (G-site) [chemical binding]; other site 1042878008438 putative dimer interface [polypeptide binding]; other site 1042878008439 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1042878008440 N-terminal domain interface [polypeptide binding]; other site 1042878008441 dimer interface [polypeptide binding]; other site 1042878008442 substrate binding pocket (H-site) [chemical binding]; other site 1042878008443 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1042878008444 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1042878008445 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1042878008446 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042878008447 enoyl-CoA hydratase; Provisional; Region: PRK05995 1042878008448 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878008449 substrate binding site [chemical binding]; other site 1042878008450 oxyanion hole (OAH) forming residues; other site 1042878008451 trimer interface [polypeptide binding]; other site 1042878008452 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 1042878008453 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1042878008454 inhibitor-cofactor binding pocket; inhibition site 1042878008455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878008456 catalytic residue [active] 1042878008457 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1042878008458 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1042878008459 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878008460 catalytic residue [active] 1042878008461 AAA domain; Region: AAA_26; pfam13500 1042878008462 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1042878008463 biotin synthase; Region: bioB; TIGR00433 1042878008464 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878008465 FeS/SAM binding site; other site 1042878008466 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1042878008467 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1042878008468 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042878008469 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042878008470 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1042878008471 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1042878008472 carboxyltransferase (CT) interaction site; other site 1042878008473 biotinylation site [posttranslational modification]; other site 1042878008474 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1042878008475 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1042878008476 putative ligand binding site [chemical binding]; other site 1042878008477 NAD binding site [chemical binding]; other site 1042878008478 dimerization interface [polypeptide binding]; other site 1042878008479 catalytic site [active] 1042878008480 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1042878008481 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1042878008482 active site 1042878008483 catalytic residues [active] 1042878008484 metal binding site [ion binding]; metal-binding site 1042878008485 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 1042878008486 putative deacylase active site [active] 1042878008487 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 1042878008488 active site 1 [active] 1042878008489 active site 2 [active] 1042878008490 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042878008491 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1042878008492 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1042878008493 N-terminal plug; other site 1042878008494 ligand-binding site [chemical binding]; other site 1042878008495 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1042878008496 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1042878008497 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1042878008498 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1042878008499 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1042878008500 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 1042878008501 P-loop, Walker A motif; other site 1042878008502 Base recognition motif; other site 1042878008503 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1042878008504 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1042878008505 metal binding site 2 [ion binding]; metal-binding site 1042878008506 putative DNA binding helix; other site 1042878008507 metal binding site 1 [ion binding]; metal-binding site 1042878008508 dimer interface [polypeptide binding]; other site 1042878008509 structural Zn2+ binding site [ion binding]; other site 1042878008510 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878008511 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878008512 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1042878008513 active site 1042878008514 HslU subunit interaction site [polypeptide binding]; other site 1042878008515 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1042878008516 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878008517 Walker A motif; other site 1042878008518 ATP binding site [chemical binding]; other site 1042878008519 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878008520 Walker B motif; other site 1042878008521 arginine finger; other site 1042878008522 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1042878008523 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1042878008524 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878008525 active site 1042878008526 phosphorylation site [posttranslational modification] 1042878008527 intermolecular recognition site; other site 1042878008528 dimerization interface [polypeptide binding]; other site 1042878008529 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878008530 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878008531 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878008532 ATP binding site [chemical binding]; other site 1042878008533 Mg2+ binding site [ion binding]; other site 1042878008534 G-X-G motif; other site 1042878008535 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1042878008536 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1042878008537 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878008538 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 1042878008539 putative substrate binding pocket [chemical binding]; other site 1042878008540 putative dimerization interface [polypeptide binding]; other site 1042878008541 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1042878008542 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 1042878008543 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 1042878008544 feedback inhibition sensing region; other site 1042878008545 homohexameric interface [polypeptide binding]; other site 1042878008546 nucleotide binding site [chemical binding]; other site 1042878008547 N-acetyl-L-glutamate binding site [chemical binding]; other site 1042878008548 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 1042878008549 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1042878008550 division inhibitor protein; Provisional; Region: slmA; PRK09480 1042878008551 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878008552 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1042878008553 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1042878008554 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1042878008555 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878008556 S-adenosylmethionine binding site [chemical binding]; other site 1042878008557 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878008558 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878008559 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878008560 putative effector binding pocket; other site 1042878008561 dimerization interface [polypeptide binding]; other site 1042878008562 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1042878008563 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1042878008564 active site 1 [active] 1042878008565 active site 2 [active] 1042878008566 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1042878008567 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878008568 putative substrate translocation pore; other site 1042878008569 Peptidase family M48; Region: Peptidase_M48; pfam01435 1042878008570 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1042878008571 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1042878008572 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1042878008573 putative active site [active] 1042878008574 putative catalytic site [active] 1042878008575 putative DNA binding site [nucleotide binding]; other site 1042878008576 putative phosphate binding site [ion binding]; other site 1042878008577 metal binding site A [ion binding]; metal-binding site 1042878008578 putative AP binding site [nucleotide binding]; other site 1042878008579 putative metal binding site B [ion binding]; other site 1042878008580 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042878008581 active site 1042878008582 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1042878008583 Patatin phospholipase; Region: DUF3734; pfam12536 1042878008584 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 1042878008585 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1042878008586 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1042878008587 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1042878008588 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1042878008589 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1042878008590 putative acyl-acceptor binding pocket; other site 1042878008591 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1042878008592 putative acyl-acceptor binding pocket; other site 1042878008593 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1042878008594 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1042878008595 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1042878008596 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1042878008597 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 1042878008598 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1042878008599 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1042878008600 NAD(P) binding site [chemical binding]; other site 1042878008601 catalytic residues [active] 1042878008602 choline dehydrogenase; Validated; Region: PRK02106 1042878008603 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878008604 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1042878008605 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1042878008606 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878008607 active site 1042878008608 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1042878008609 ThiC-associated domain; Region: ThiC-associated; pfam13667 1042878008610 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1042878008611 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1042878008612 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1042878008613 thiS-thiF/thiG interaction site; other site 1042878008614 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 1042878008615 ThiS interaction site; other site 1042878008616 putative active site [active] 1042878008617 tetramer interface [polypeptide binding]; other site 1042878008618 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1042878008619 thiamine phosphate binding site [chemical binding]; other site 1042878008620 active site 1042878008621 pyrophosphate binding site [ion binding]; other site 1042878008622 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878008623 Coenzyme A binding pocket [chemical binding]; other site 1042878008624 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 1042878008625 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1042878008626 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1042878008627 CoenzymeA binding site [chemical binding]; other site 1042878008628 subunit interaction site [polypeptide binding]; other site 1042878008629 PHB binding site; other site 1042878008630 PGDYG protein; Region: PGDYG; pfam14083 1042878008631 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1042878008632 dimer interface [polypeptide binding]; other site 1042878008633 substrate binding site [chemical binding]; other site 1042878008634 ATP binding site [chemical binding]; other site 1042878008635 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1042878008636 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1042878008637 homotetramer interface [polypeptide binding]; other site 1042878008638 ligand binding site [chemical binding]; other site 1042878008639 catalytic site [active] 1042878008640 NAD binding site [chemical binding]; other site 1042878008641 Predicted membrane protein [Function unknown]; Region: COG1950 1042878008642 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 1042878008643 FAD binding site [chemical binding]; other site 1042878008644 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1042878008645 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 1042878008646 Uncharacterized conserved protein [Function unknown]; Region: COG1656 1042878008647 Protein of unknown function DUF82; Region: DUF82; pfam01927 1042878008648 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1042878008649 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1042878008650 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1042878008651 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1042878008652 catalytic residue [active] 1042878008653 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1042878008654 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1042878008655 putative NAD(P) binding site [chemical binding]; other site 1042878008656 active site 1042878008657 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 1042878008658 putative C-terminal domain interface [polypeptide binding]; other site 1042878008659 putative GSH binding site (G-site) [chemical binding]; other site 1042878008660 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042878008661 putative dimer interface [polypeptide binding]; other site 1042878008662 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1042878008663 putative substrate binding pocket (H-site) [chemical binding]; other site 1042878008664 putative N-terminal domain interface [polypeptide binding]; other site 1042878008665 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1042878008666 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1042878008667 active site 1042878008668 NTP binding site [chemical binding]; other site 1042878008669 metal binding triad [ion binding]; metal-binding site 1042878008670 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1042878008671 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042878008672 Zn2+ binding site [ion binding]; other site 1042878008673 Mg2+ binding site [ion binding]; other site 1042878008674 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1042878008675 Ligand Binding Site [chemical binding]; other site 1042878008676 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878008677 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878008678 Walker A/P-loop; other site 1042878008679 ATP binding site [chemical binding]; other site 1042878008680 Q-loop/lid; other site 1042878008681 ABC transporter signature motif; other site 1042878008682 Walker B; other site 1042878008683 D-loop; other site 1042878008684 H-loop/switch region; other site 1042878008685 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878008686 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878008687 Walker A/P-loop; other site 1042878008688 ATP binding site [chemical binding]; other site 1042878008689 Q-loop/lid; other site 1042878008690 ABC transporter signature motif; other site 1042878008691 Walker B; other site 1042878008692 D-loop; other site 1042878008693 H-loop/switch region; other site 1042878008694 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1042878008695 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878008696 TM-ABC transporter signature motif; other site 1042878008697 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878008698 TM-ABC transporter signature motif; other site 1042878008699 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1042878008700 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_5; cd06338 1042878008701 putative ligand binding site [chemical binding]; other site 1042878008702 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1042878008703 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1042878008704 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878008705 Walker A/P-loop; other site 1042878008706 ATP binding site [chemical binding]; other site 1042878008707 Q-loop/lid; other site 1042878008708 ABC transporter signature motif; other site 1042878008709 Walker B; other site 1042878008710 D-loop; other site 1042878008711 H-loop/switch region; other site 1042878008712 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878008713 conserved gate region; other site 1042878008714 dimer interface [polypeptide binding]; other site 1042878008715 putative PBP binding loops; other site 1042878008716 ABC-ATPase subunit interface; other site 1042878008717 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1042878008718 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878008719 dimer interface [polypeptide binding]; other site 1042878008720 conserved gate region; other site 1042878008721 putative PBP binding loops; other site 1042878008722 ABC-ATPase subunit interface; other site 1042878008723 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 1042878008724 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1042878008725 short chain dehydrogenase; Provisional; Region: PRK09134 1042878008726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878008727 NAD(P) binding site [chemical binding]; other site 1042878008728 active site 1042878008729 Dihydroneopterin aldolase; Region: FolB; smart00905 1042878008730 active site 1042878008731 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1042878008732 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 1042878008733 Ligand Binding Site [chemical binding]; other site 1042878008734 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1042878008735 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1042878008736 Substrate binding site; other site 1042878008737 Mg++ binding site; other site 1042878008738 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 1042878008739 active site 1042878008740 substrate binding site [chemical binding]; other site 1042878008741 CoA binding site [chemical binding]; other site 1042878008742 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1042878008743 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 1042878008744 glutaminase active site [active] 1042878008745 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1042878008746 dimer interface [polypeptide binding]; other site 1042878008747 active site 1042878008748 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1042878008749 dimer interface [polypeptide binding]; other site 1042878008750 active site 1042878008751 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 1042878008752 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 1042878008753 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1042878008754 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1042878008755 Moco binding site; other site 1042878008756 metal coordination site [ion binding]; other site 1042878008757 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1042878008758 DNA binding residues [nucleotide binding] 1042878008759 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878008760 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878008761 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1042878008762 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1042878008763 Probable transposase; Region: OrfB_IS605; pfam01385 1042878008764 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878008765 Transposase IS200 like; Region: Y1_Tnp; cl00848 1042878008766 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 1042878008767 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878008768 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878008769 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1042878008770 dimerization interface [polypeptide binding]; other site 1042878008771 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878008772 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1042878008773 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1042878008774 heme binding site [chemical binding]; other site 1042878008775 ferroxidase pore; other site 1042878008776 ferroxidase diiron center [ion binding]; other site 1042878008777 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878008778 Coenzyme A binding pocket [chemical binding]; other site 1042878008779 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1042878008780 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878008781 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878008782 DNA-binding site [nucleotide binding]; DNA binding site 1042878008783 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878008784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878008785 homodimer interface [polypeptide binding]; other site 1042878008786 catalytic residue [active] 1042878008787 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1042878008788 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1042878008789 inhibitor-cofactor binding pocket; inhibition site 1042878008790 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878008791 catalytic residue [active] 1042878008792 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1042878008793 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1042878008794 tetrameric interface [polypeptide binding]; other site 1042878008795 NAD binding site [chemical binding]; other site 1042878008796 catalytic residues [active] 1042878008797 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_5; cd07238 1042878008798 dimer interface [polypeptide binding]; other site 1042878008799 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878008800 Helix-turn-helix domain; Region: HTH_18; pfam12833 1042878008801 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1042878008802 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1042878008803 Probable transposase; Region: OrfB_IS605; pfam01385 1042878008804 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878008805 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1042878008806 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1042878008807 conserved cys residue [active] 1042878008808 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878008809 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878008810 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878008811 putative substrate translocation pore; other site 1042878008812 amino acid transporter; Region: 2A0306; TIGR00909 1042878008813 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1042878008814 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878008815 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878008816 DNA-binding site [nucleotide binding]; DNA binding site 1042878008817 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878008818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878008819 homodimer interface [polypeptide binding]; other site 1042878008820 catalytic residue [active] 1042878008821 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 1042878008822 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 1042878008823 B12 binding site [chemical binding]; other site 1042878008824 cobalt ligand [ion binding]; other site 1042878008825 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 1042878008826 Walker A; other site 1042878008827 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, unknown subfamily 1; composed of uncharacterized bacterial proteins containing a C-terminal MCM domain. MCM catalyzes the isomerization of methylmalonyl-CoA to succinyl-CoA. The...; Region: MM_CoA_mutase_1; cd03678 1042878008828 putative active site [active] 1042878008829 putative substrate binding site [chemical binding]; other site 1042878008830 putative coenzyme B12 binding site [chemical binding]; other site 1042878008831 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 1042878008832 HIT family signature motif; other site 1042878008833 catalytic residue [active] 1042878008834 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 1042878008835 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042878008836 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042878008837 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 1042878008838 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042878008839 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042878008840 ligand binding site [chemical binding]; other site 1042878008841 flexible hinge region; other site 1042878008842 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1042878008843 putative switch regulator; other site 1042878008844 non-specific DNA interactions [nucleotide binding]; other site 1042878008845 DNA binding site [nucleotide binding] 1042878008846 sequence specific DNA binding site [nucleotide binding]; other site 1042878008847 putative cAMP binding site [chemical binding]; other site 1042878008848 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1042878008849 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1042878008850 acyl-activating enzyme (AAE) consensus motif; other site 1042878008851 putative AMP binding site [chemical binding]; other site 1042878008852 putative active site [active] 1042878008853 putative CoA binding site [chemical binding]; other site 1042878008854 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878008855 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878008856 Walker A/P-loop; other site 1042878008857 ATP binding site [chemical binding]; other site 1042878008858 Q-loop/lid; other site 1042878008859 ABC transporter signature motif; other site 1042878008860 Walker B; other site 1042878008861 D-loop; other site 1042878008862 H-loop/switch region; other site 1042878008863 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878008864 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878008865 TM-ABC transporter signature motif; other site 1042878008866 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1042878008867 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878008868 TM-ABC transporter signature motif; other site 1042878008869 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 1042878008870 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878008871 putative ligand binding site [chemical binding]; other site 1042878008872 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878008873 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878008874 Walker A/P-loop; other site 1042878008875 ATP binding site [chemical binding]; other site 1042878008876 Q-loop/lid; other site 1042878008877 ABC transporter signature motif; other site 1042878008878 Walker B; other site 1042878008879 D-loop; other site 1042878008880 H-loop/switch region; other site 1042878008881 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1042878008882 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878008883 acyl-activating enzyme (AAE) consensus motif; other site 1042878008884 AMP binding site [chemical binding]; other site 1042878008885 active site 1042878008886 CoA binding site [chemical binding]; other site 1042878008887 Protein of unknown function (DUF454); Region: DUF454; pfam04304 1042878008888 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1042878008889 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1042878008890 FMN binding site [chemical binding]; other site 1042878008891 substrate binding site [chemical binding]; other site 1042878008892 putative catalytic residue [active] 1042878008893 sensory histidine kinase CreC; Provisional; Region: PRK11100 1042878008894 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1042878008895 dimerization interface [polypeptide binding]; other site 1042878008896 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878008897 dimer interface [polypeptide binding]; other site 1042878008898 phosphorylation site [posttranslational modification] 1042878008899 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878008900 ATP binding site [chemical binding]; other site 1042878008901 Mg2+ binding site [ion binding]; other site 1042878008902 G-X-G motif; other site 1042878008903 DNA-binding response regulator CreB; Provisional; Region: PRK11083 1042878008904 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878008905 active site 1042878008906 phosphorylation site [posttranslational modification] 1042878008907 intermolecular recognition site; other site 1042878008908 dimerization interface [polypeptide binding]; other site 1042878008909 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878008910 DNA binding site [nucleotide binding] 1042878008911 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1042878008912 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1042878008913 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878008914 active site 1042878008915 phosphorylation site [posttranslational modification] 1042878008916 intermolecular recognition site; other site 1042878008917 dimerization interface [polypeptide binding]; other site 1042878008918 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878008919 Walker A motif; other site 1042878008920 ATP binding site [chemical binding]; other site 1042878008921 Walker B motif; other site 1042878008922 arginine finger; other site 1042878008923 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878008924 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1042878008925 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878008926 dimer interface [polypeptide binding]; other site 1042878008927 phosphorylation site [posttranslational modification] 1042878008928 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878008929 ATP binding site [chemical binding]; other site 1042878008930 G-X-G motif; other site 1042878008931 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1042878008932 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042878008933 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1042878008934 dimer interface [polypeptide binding]; other site 1042878008935 [2Fe-2S] cluster binding site [ion binding]; other site 1042878008936 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1042878008937 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042878008938 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1042878008939 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1042878008940 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1042878008941 hypothetical protein; Provisional; Region: PRK02047 1042878008942 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 1042878008943 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1042878008944 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1042878008945 putative RNA binding site [nucleotide binding]; other site 1042878008946 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878008947 S-adenosylmethionine binding site [chemical binding]; other site 1042878008948 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042878008949 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042878008950 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1042878008951 Part of AAA domain; Region: AAA_19; pfam13245 1042878008952 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1042878008953 Family description; Region: UvrD_C_2; pfam13538 1042878008954 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1042878008955 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1042878008956 catalytic residues [active] 1042878008957 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 1042878008958 catalytic residues [active] 1042878008959 LysE type translocator; Region: LysE; cl00565 1042878008960 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878008961 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878008962 eyelet of channel; other site 1042878008963 trimer interface [polypeptide binding]; other site 1042878008964 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1042878008965 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1042878008966 active site 1042878008967 dimer interface [polypeptide binding]; other site 1042878008968 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1042878008969 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1042878008970 dimer interface [polypeptide binding]; other site 1042878008971 active site 1042878008972 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1042878008973 dimer interface [polypeptide binding]; other site 1042878008974 active site 1042878008975 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1042878008976 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1042878008977 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1042878008978 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1042878008979 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 1042878008980 active site 1042878008981 dimer interface [polypeptide binding]; other site 1042878008982 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1042878008983 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 1042878008984 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1042878008985 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1042878008986 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878008987 Walker A motif; other site 1042878008988 ATP binding site [chemical binding]; other site 1042878008989 Walker B motif; other site 1042878008990 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1042878008991 Membrane fusogenic activity; Region: BMFP; pfam04380 1042878008992 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; pfam09694 1042878008993 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1042878008994 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1042878008995 ammonium transporter; Provisional; Region: PRK10666 1042878008996 Glutamate-cysteine ligase; Region: GshA; pfam08886 1042878008997 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 1042878008998 glutathione synthetase; Provisional; Region: PRK05246 1042878008999 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1042878009000 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1042878009001 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1042878009002 active pocket/dimerization site; other site 1042878009003 active site 1042878009004 phosphorylation site [posttranslational modification] 1042878009005 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1042878009006 dimerization domain swap beta strand [polypeptide binding]; other site 1042878009007 regulatory protein interface [polypeptide binding]; other site 1042878009008 active site 1042878009009 regulatory phosphorylation site [posttranslational modification]; other site 1042878009010 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1042878009011 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1042878009012 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1042878009013 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1042878009014 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1042878009015 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1042878009016 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1042878009017 heme binding site [chemical binding]; other site 1042878009018 ferroxidase pore; other site 1042878009019 ferroxidase diiron center [ion binding]; other site 1042878009020 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1042878009021 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1042878009022 active site residue [active] 1042878009023 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1042878009024 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 1042878009025 ATP binding site [chemical binding]; other site 1042878009026 substrate interface [chemical binding]; other site 1042878009027 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1042878009028 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1042878009029 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 1042878009030 protein binding site [polypeptide binding]; other site 1042878009031 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1042878009032 Catalytic dyad [active] 1042878009033 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1042878009034 catalytic core [active] 1042878009035 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1042878009036 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1042878009037 active site residue [active] 1042878009038 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 1042878009039 GSH binding site [chemical binding]; other site 1042878009040 catalytic residues [active] 1042878009041 preprotein translocase subunit SecB; Validated; Region: PRK05751 1042878009042 SecA binding site; other site 1042878009043 Preprotein binding site; other site 1042878009044 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1042878009045 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1042878009046 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1042878009047 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878009048 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1042878009049 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042878009050 active site 1042878009051 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1042878009052 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1042878009053 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878009054 S-adenosylmethionine binding site [chemical binding]; other site 1042878009055 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 1042878009056 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 1042878009057 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1042878009058 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1042878009059 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042878009060 Cytochrome c; Region: Cytochrom_C; pfam00034 1042878009061 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1042878009062 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 1042878009063 Subunit I/III interface [polypeptide binding]; other site 1042878009064 D-pathway; other site 1042878009065 Subunit I/VIIc interface [polypeptide binding]; other site 1042878009066 Subunit I/IV interface [polypeptide binding]; other site 1042878009067 Subunit I/II interface [polypeptide binding]; other site 1042878009068 Low-spin heme (heme a) binding site [chemical binding]; other site 1042878009069 Subunit I/VIIa interface [polypeptide binding]; other site 1042878009070 Subunit I/VIa interface [polypeptide binding]; other site 1042878009071 Dimer interface; other site 1042878009072 Putative water exit pathway; other site 1042878009073 Binuclear center (heme a3/CuB) [ion binding]; other site 1042878009074 K-pathway; other site 1042878009075 Subunit I/Vb interface [polypeptide binding]; other site 1042878009076 Putative proton exit pathway; other site 1042878009077 Subunit I/VIb interface; other site 1042878009078 Subunit I/VIc interface [polypeptide binding]; other site 1042878009079 Electron transfer pathway; other site 1042878009080 Subunit I/VIIIb interface [polypeptide binding]; other site 1042878009081 Subunit I/VIIb interface [polypeptide binding]; other site 1042878009082 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1042878009083 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1042878009084 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 1042878009085 Subunit III/VIIa interface [polypeptide binding]; other site 1042878009086 Phospholipid binding site [chemical binding]; other site 1042878009087 Subunit I/III interface [polypeptide binding]; other site 1042878009088 Subunit III/VIb interface [polypeptide binding]; other site 1042878009089 Subunit III/VIa interface; other site 1042878009090 Subunit III/Vb interface [polypeptide binding]; other site 1042878009091 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1042878009092 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1042878009093 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1042878009094 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1042878009095 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1042878009096 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1042878009097 UbiA prenyltransferase family; Region: UbiA; pfam01040 1042878009098 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1042878009099 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 1042878009100 Cu(I) binding site [ion binding]; other site 1042878009101 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1042878009102 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878009103 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042878009104 DNA binding residues [nucleotide binding] 1042878009105 Pirin-related protein [General function prediction only]; Region: COG1741 1042878009106 Pirin; Region: Pirin; pfam02678 1042878009107 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1042878009108 glycosyl transferase family protein; Provisional; Region: PRK08136 1042878009109 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1042878009110 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1042878009111 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1042878009112 Walker A/P-loop; other site 1042878009113 ATP binding site [chemical binding]; other site 1042878009114 Q-loop/lid; other site 1042878009115 ABC transporter signature motif; other site 1042878009116 Walker B; other site 1042878009117 D-loop; other site 1042878009118 H-loop/switch region; other site 1042878009119 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042878009120 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878009121 dimer interface [polypeptide binding]; other site 1042878009122 conserved gate region; other site 1042878009123 putative PBP binding loops; other site 1042878009124 ABC-ATPase subunit interface; other site 1042878009125 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1042878009126 NMT1-like family; Region: NMT1_2; pfam13379 1042878009127 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1042878009128 ANTAR domain; Region: ANTAR; pfam03861 1042878009129 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878009130 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878009131 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 1042878009132 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1042878009133 C-terminal domain interface [polypeptide binding]; other site 1042878009134 GSH binding site (G-site) [chemical binding]; other site 1042878009135 putative dimer interface [polypeptide binding]; other site 1042878009136 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1042878009137 dimer interface [polypeptide binding]; other site 1042878009138 N-terminal domain interface [polypeptide binding]; other site 1042878009139 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1042878009140 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1042878009141 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 1042878009142 P loop; other site 1042878009143 GTP binding site [chemical binding]; other site 1042878009144 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1042878009145 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1042878009146 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1042878009147 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1042878009148 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1042878009149 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1042878009150 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878009151 S-adenosylmethionine binding site [chemical binding]; other site 1042878009152 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1042878009153 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1042878009154 active site 1042878009155 (T/H)XGH motif; other site 1042878009156 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042878009157 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1042878009158 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 1042878009159 putative active site [active] 1042878009160 catalytic residue [active] 1042878009161 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1042878009162 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1042878009163 5S rRNA interface [nucleotide binding]; other site 1042878009164 CTC domain interface [polypeptide binding]; other site 1042878009165 L16 interface [polypeptide binding]; other site 1042878009166 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1042878009167 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1042878009168 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042878009169 active site 1042878009170 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1042878009171 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1042878009172 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1042878009173 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1042878009174 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042878009175 TPR motif; other site 1042878009176 binding surface 1042878009177 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042878009178 binding surface 1042878009179 TPR motif; other site 1042878009180 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042878009181 binding surface 1042878009182 TPR motif; other site 1042878009183 TPR repeat; Region: TPR_11; pfam13414 1042878009184 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042878009185 binding surface 1042878009186 TPR motif; other site 1042878009187 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1042878009188 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1042878009189 DNA binding site [nucleotide binding] 1042878009190 catalytic residue [active] 1042878009191 H2TH interface [polypeptide binding]; other site 1042878009192 putative catalytic residues [active] 1042878009193 turnover-facilitating residue; other site 1042878009194 intercalation triad [nucleotide binding]; other site 1042878009195 8OG recognition residue [nucleotide binding]; other site 1042878009196 putative reading head residues; other site 1042878009197 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1042878009198 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1042878009199 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1042878009200 Dynamin family; Region: Dynamin_N; pfam00350 1042878009201 G1 box; other site 1042878009202 GTP/Mg2+ binding site [chemical binding]; other site 1042878009203 G2 box; other site 1042878009204 Switch I region; other site 1042878009205 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 1042878009206 G3 box; other site 1042878009207 Switch II region; other site 1042878009208 GTP/Mg2+ binding site [chemical binding]; other site 1042878009209 G4 box; other site 1042878009210 G5 box; other site 1042878009211 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1042878009212 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1042878009213 minor groove reading motif; other site 1042878009214 helix-hairpin-helix signature motif; other site 1042878009215 substrate binding pocket [chemical binding]; other site 1042878009216 active site 1042878009217 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 1042878009218 DNA binding and oxoG recognition site [nucleotide binding] 1042878009219 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 1042878009220 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1042878009221 psiF repeat; Region: PsiF_repeat; pfam07769 1042878009222 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1042878009223 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1042878009224 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1042878009225 Hpr binding site; other site 1042878009226 active site 1042878009227 homohexamer subunit interaction site [polypeptide binding]; other site 1042878009228 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1042878009229 active site 1042878009230 phosphorylation site [posttranslational modification] 1042878009231 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 1042878009232 30S subunit binding site; other site 1042878009233 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1042878009234 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1042878009235 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1042878009236 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1042878009237 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1042878009238 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1042878009239 Walker A/P-loop; other site 1042878009240 ATP binding site [chemical binding]; other site 1042878009241 Q-loop/lid; other site 1042878009242 ABC transporter signature motif; other site 1042878009243 Walker B; other site 1042878009244 D-loop; other site 1042878009245 H-loop/switch region; other site 1042878009246 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1042878009247 OstA-like protein; Region: OstA; pfam03968 1042878009248 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1042878009249 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1042878009250 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1042878009251 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 1042878009252 putative active site [active] 1042878009253 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 1042878009254 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1042878009255 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1042878009256 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1042878009257 TrkA-N domain; Region: TrkA_N; pfam02254 1042878009258 TrkA-C domain; Region: TrkA_C; pfam02080 1042878009259 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1042878009260 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1042878009261 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1042878009262 conserved cys residue [active] 1042878009263 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042878009264 active site 1042878009265 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1042878009266 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1042878009267 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1042878009268 PhoU domain; Region: PhoU; pfam01895 1042878009269 PhoU domain; Region: PhoU; pfam01895 1042878009270 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 1042878009271 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1042878009272 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1042878009273 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1042878009274 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1042878009275 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878009276 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878009277 putative substrate translocation pore; other site 1042878009278 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1042878009279 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 1042878009280 dimer interface [polypeptide binding]; other site 1042878009281 ssDNA binding site [nucleotide binding]; other site 1042878009282 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1042878009283 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878009284 active site 1042878009285 Int/Topo IB signature motif; other site 1042878009286 DNA binding site [nucleotide binding] 1042878009287 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1042878009288 active site 1042878009289 catalytic residues [active] 1042878009290 DNA binding site [nucleotide binding] 1042878009291 Int/Topo IB signature motif; other site 1042878009292 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 1042878009293 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878009294 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878009295 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878009296 trimer interface [polypeptide binding]; other site 1042878009297 eyelet of channel; other site 1042878009298 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878009299 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1042878009300 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042878009301 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878009302 metal binding site [ion binding]; metal-binding site 1042878009303 active site 1042878009304 I-site; other site 1042878009305 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 1042878009306 Ion channel; Region: Ion_trans_2; pfam07885 1042878009307 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1042878009308 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1042878009309 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878009310 substrate binding pocket [chemical binding]; other site 1042878009311 membrane-bound complex binding site; other site 1042878009312 hinge residues; other site 1042878009313 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1042878009314 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1042878009315 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1042878009316 putative active site [active] 1042878009317 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1042878009318 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1042878009319 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 1042878009320 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1042878009321 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1042878009322 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1042878009323 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042878009324 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1042878009325 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1042878009326 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1042878009327 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1042878009328 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1042878009329 Walker A/P-loop; other site 1042878009330 ATP binding site [chemical binding]; other site 1042878009331 Q-loop/lid; other site 1042878009332 ABC transporter signature motif; other site 1042878009333 Walker B; other site 1042878009334 D-loop; other site 1042878009335 H-loop/switch region; other site 1042878009336 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042878009337 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878009338 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878009339 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878009340 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1042878009341 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1042878009342 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1042878009343 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1042878009344 threonine dehydratase; Reviewed; Region: PRK09224 1042878009345 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1042878009346 tetramer interface [polypeptide binding]; other site 1042878009347 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878009348 catalytic residue [active] 1042878009349 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1042878009350 putative Ile/Val binding site [chemical binding]; other site 1042878009351 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1042878009352 putative Ile/Val binding site [chemical binding]; other site 1042878009353 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 1042878009354 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 1042878009355 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1042878009356 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1042878009357 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1042878009358 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1042878009359 active site 1042878009360 homotetramer interface [polypeptide binding]; other site 1042878009361 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 1042878009362 aromatic arch; other site 1042878009363 DCoH dimer interaction site [polypeptide binding]; other site 1042878009364 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1042878009365 DCoH tetramer interaction site [polypeptide binding]; other site 1042878009366 substrate binding site [chemical binding]; other site 1042878009367 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1042878009368 metal-binding site 1042878009369 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1042878009370 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1042878009371 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1042878009372 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 1042878009373 putative hydrophobic ligand binding site [chemical binding]; other site 1042878009374 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 1042878009375 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1042878009376 metal ion-dependent adhesion site (MIDAS); other site 1042878009377 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878009378 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1042878009379 Walker A motif; other site 1042878009380 ATP binding site [chemical binding]; other site 1042878009381 Walker B motif; other site 1042878009382 arginine finger; other site 1042878009383 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1042878009384 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1042878009385 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1042878009386 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042878009387 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878009388 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1042878009389 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 1042878009390 catalytic loop [active] 1042878009391 iron binding site [ion binding]; other site 1042878009392 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042878009393 Predicted membrane protein [Function unknown]; Region: COG1238 1042878009394 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 1042878009395 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042878009396 FAD binding domain; Region: FAD_binding_4; pfam01565 1042878009397 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042878009398 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 1042878009399 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1042878009400 Cysteine-rich domain; Region: CCG; pfam02754 1042878009401 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 1042878009402 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1042878009403 HIT family signature motif; other site 1042878009404 catalytic residue [active] 1042878009405 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1042878009406 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1042878009407 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1042878009408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1042878009409 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1042878009410 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878009411 S-adenosylmethionine binding site [chemical binding]; other site 1042878009412 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 1042878009413 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1042878009414 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1042878009415 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1042878009416 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878009417 S-adenosylmethionine binding site [chemical binding]; other site 1042878009418 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 1042878009419 Na binding site [ion binding]; other site 1042878009420 putative glycosylation site [posttranslational modification]; other site 1042878009421 putative glycosylation site [posttranslational modification]; other site 1042878009422 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 1042878009423 Uncharacterized conserved protein [Function unknown]; Region: COG2928 1042878009424 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1042878009425 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 1042878009426 dimer interface [polypeptide binding]; other site 1042878009427 anticodon binding site; other site 1042878009428 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1042878009429 homodimer interface [polypeptide binding]; other site 1042878009430 motif 1; other site 1042878009431 active site 1042878009432 motif 2; other site 1042878009433 GAD domain; Region: GAD; pfam02938 1042878009434 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1042878009435 motif 3; other site 1042878009436 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 1042878009437 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 1042878009438 nudix motif; other site 1042878009439 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1042878009440 putative catalytic site [active] 1042878009441 putative metal binding site [ion binding]; other site 1042878009442 putative phosphate binding site [ion binding]; other site 1042878009443 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 1042878009444 Walker A motif; other site 1042878009445 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1042878009446 putative active site [active] 1042878009447 catalytic site [active] 1042878009448 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1042878009449 putative active site [active] 1042878009450 catalytic site [active] 1042878009451 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878009452 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878009453 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1042878009454 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1042878009455 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 1042878009456 FAD binding site [chemical binding]; other site 1042878009457 substrate binding site [chemical binding]; other site 1042878009458 catalytic residues [active] 1042878009459 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1042878009460 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1042878009461 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042878009462 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042878009463 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042878009464 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878009465 substrate binding site [chemical binding]; other site 1042878009466 oxyanion hole (OAH) forming residues; other site 1042878009467 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 1042878009468 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878009469 dimer interface [polypeptide binding]; other site 1042878009470 active site 1042878009471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 1042878009472 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1042878009473 enoyl-CoA hydratase; Provisional; Region: PRK06688 1042878009474 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878009475 substrate binding site [chemical binding]; other site 1042878009476 oxyanion hole (OAH) forming residues; other site 1042878009477 trimer interface [polypeptide binding]; other site 1042878009478 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1042878009479 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042878009480 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1042878009481 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 1042878009482 Walker A/P-loop; other site 1042878009483 ATP binding site [chemical binding]; other site 1042878009484 Q-loop/lid; other site 1042878009485 ABC transporter signature motif; other site 1042878009486 Walker B; other site 1042878009487 D-loop; other site 1042878009488 H-loop/switch region; other site 1042878009489 NMT1/THI5 like; Region: NMT1; pfam09084 1042878009490 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1042878009491 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1042878009492 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1042878009493 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1042878009494 Walker A/P-loop; other site 1042878009495 ATP binding site [chemical binding]; other site 1042878009496 Q-loop/lid; other site 1042878009497 ABC transporter signature motif; other site 1042878009498 Walker B; other site 1042878009499 D-loop; other site 1042878009500 H-loop/switch region; other site 1042878009501 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042878009502 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878009503 dimer interface [polypeptide binding]; other site 1042878009504 conserved gate region; other site 1042878009505 putative PBP binding loops; other site 1042878009506 ABC-ATPase subunit interface; other site 1042878009507 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878009508 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042878009509 dimerization interface [polypeptide binding]; other site 1042878009510 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1042878009511 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1042878009512 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1042878009513 NAD(P) binding site [chemical binding]; other site 1042878009514 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1042878009515 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878009516 substrate binding pocket [chemical binding]; other site 1042878009517 membrane-bound complex binding site; other site 1042878009518 hinge residues; other site 1042878009519 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042878009520 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878009521 dimer interface [polypeptide binding]; other site 1042878009522 conserved gate region; other site 1042878009523 putative PBP binding loops; other site 1042878009524 ABC-ATPase subunit interface; other site 1042878009525 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042878009526 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878009527 dimer interface [polypeptide binding]; other site 1042878009528 conserved gate region; other site 1042878009529 putative PBP binding loops; other site 1042878009530 ABC-ATPase subunit interface; other site 1042878009531 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042878009532 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042878009533 Walker A/P-loop; other site 1042878009534 ATP binding site [chemical binding]; other site 1042878009535 Q-loop/lid; other site 1042878009536 ABC transporter signature motif; other site 1042878009537 Walker B; other site 1042878009538 D-loop; other site 1042878009539 H-loop/switch region; other site 1042878009540 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1042878009541 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1042878009542 putative active site [active] 1042878009543 putative dimer interface [polypeptide binding]; other site 1042878009544 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1042878009545 tartrate dehydrogenase; Region: TTC; TIGR02089 1042878009546 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1042878009547 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1042878009548 MOFRL family; Region: MOFRL; pfam05161 1042878009549 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 1042878009550 active site 1042878009551 substrate binding pocket [chemical binding]; other site 1042878009552 dimer interface [polypeptide binding]; other site 1042878009553 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 1042878009554 OsmC-like protein; Region: OsmC; cl00767 1042878009555 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 1042878009556 23S rRNA interface [nucleotide binding]; other site 1042878009557 L3 interface [polypeptide binding]; other site 1042878009558 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1042878009559 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1042878009560 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1042878009561 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1042878009562 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1042878009563 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878009564 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878009565 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878009566 dimerization interface [polypeptide binding]; other site 1042878009567 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1042878009568 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1042878009569 Peptidase family M23; Region: Peptidase_M23; pfam01551 1042878009570 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1042878009571 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1042878009572 active site 1042878009573 HIGH motif; other site 1042878009574 dimer interface [polypeptide binding]; other site 1042878009575 KMSKS motif; other site 1042878009576 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1042878009577 RNA binding surface [nucleotide binding]; other site 1042878009578 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 1042878009579 putative active site [active] 1042878009580 dimerization interface [polypeptide binding]; other site 1042878009581 putative tRNAtyr binding site [nucleotide binding]; other site 1042878009582 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1042878009583 substrate binding site [chemical binding]; other site 1042878009584 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1042878009585 catalytic core [active] 1042878009586 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 1042878009587 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 1042878009588 putative amphipathic alpha helix; other site 1042878009589 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1042878009590 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878009591 Walker A motif; other site 1042878009592 ATP binding site [chemical binding]; other site 1042878009593 Walker B motif; other site 1042878009594 arginine finger; other site 1042878009595 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1042878009596 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1042878009597 RuvA N terminal domain; Region: RuvA_N; pfam01330 1042878009598 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1042878009599 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1042878009600 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 1042878009601 putative active site [active] 1042878009602 catalytic site [active] 1042878009603 putative metal binding site [ion binding]; other site 1042878009604 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 1042878009605 active site 1042878009606 putative DNA-binding cleft [nucleotide binding]; other site 1042878009607 dimer interface [polypeptide binding]; other site 1042878009608 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1042878009609 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 1042878009610 purine monophosphate binding site [chemical binding]; other site 1042878009611 dimer interface [polypeptide binding]; other site 1042878009612 putative catalytic residues [active] 1042878009613 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1042878009614 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1042878009615 DNA-binding protein Fis; Provisional; Region: PRK01905 1042878009616 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1042878009617 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 1042878009618 FMN binding site [chemical binding]; other site 1042878009619 active site 1042878009620 catalytic residues [active] 1042878009621 substrate binding site [chemical binding]; other site 1042878009622 hypothetical protein; Provisional; Region: PRK06996 1042878009623 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042878009624 proline aminopeptidase P II; Provisional; Region: PRK10879 1042878009625 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1042878009626 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 1042878009627 active site 1042878009628 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 1042878009629 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1042878009630 Substrate binding site; other site 1042878009631 metal-binding site 1042878009632 Predicted membrane protein [Function unknown]; Region: COG4392 1042878009633 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1042878009634 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1042878009635 Phosphotransferase enzyme family; Region: APH; pfam01636 1042878009636 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1042878009637 OstA-like protein; Region: OstA; cl00844 1042878009638 OstA-like protein; Region: OstA; cl00844 1042878009639 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1042878009640 SurA N-terminal domain; Region: SurA_N; pfam09312 1042878009641 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1042878009642 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 1042878009643 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1042878009644 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 1042878009645 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1042878009646 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1042878009647 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1042878009648 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1042878009649 active site 1042878009650 HIGH motif; other site 1042878009651 dimer interface [polypeptide binding]; other site 1042878009652 KMSKS motif; other site 1042878009653 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878009654 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1042878009655 dimer interface [polypeptide binding]; other site 1042878009656 active site 1042878009657 metal binding site [ion binding]; metal-binding site 1042878009658 glutathione binding site [chemical binding]; other site 1042878009659 Protein of unknown function DUF45; Region: DUF45; pfam01863 1042878009660 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1042878009661 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1042878009662 putative acyl-acceptor binding pocket; other site 1042878009663 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1042878009664 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042878009665 active site 1042878009666 motif I; other site 1042878009667 motif II; other site 1042878009668 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1042878009669 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1042878009670 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 1042878009671 dimer interface [polypeptide binding]; other site 1042878009672 motif 1; other site 1042878009673 active site 1042878009674 motif 2; other site 1042878009675 motif 3; other site 1042878009676 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1042878009677 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1042878009678 putative active site [active] 1042878009679 catalytic triad [active] 1042878009680 putative dimer interface [polypeptide binding]; other site 1042878009681 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1042878009682 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1042878009683 Transporter associated domain; Region: CorC_HlyC; smart01091 1042878009684 unkown domain/putative metalloprotease fusion protein; Provisional; Region: PRK13963 1042878009685 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1042878009686 PhoH-like protein; Region: PhoH; pfam02562 1042878009687 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1042878009688 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1042878009689 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878009690 FeS/SAM binding site; other site 1042878009691 TRAM domain; Region: TRAM; pfam01938 1042878009692 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 1042878009693 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 1042878009694 Cl- selectivity filter; other site 1042878009695 Cl- binding residues [ion binding]; other site 1042878009696 pore gating glutamate residue; other site 1042878009697 dimer interface [polypeptide binding]; other site 1042878009698 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1042878009699 helicase 45; Provisional; Region: PTZ00424 1042878009700 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1042878009701 ATP binding site [chemical binding]; other site 1042878009702 Mg++ binding site [ion binding]; other site 1042878009703 motif III; other site 1042878009704 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042878009705 nucleotide binding region [chemical binding]; other site 1042878009706 ATP-binding site [chemical binding]; other site 1042878009707 serine/threonine protein kinase; Provisional; Region: PRK11768 1042878009708 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1042878009709 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1042878009710 Ligand Binding Site [chemical binding]; other site 1042878009711 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878009712 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878009713 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1042878009714 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878009715 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 1042878009716 active site 1042878009717 phosphorylation site [posttranslational modification] 1042878009718 intermolecular recognition site; other site 1042878009719 dimerization interface [polypeptide binding]; other site 1042878009720 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878009721 DNA binding residues [nucleotide binding] 1042878009722 dimerization interface [polypeptide binding]; other site 1042878009723 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1042878009724 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1042878009725 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1042878009726 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1042878009727 Peptidase M15; Region: Peptidase_M15_3; cl01194 1042878009728 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878009729 putative substrate translocation pore; other site 1042878009730 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 1042878009731 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1042878009732 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878009733 HAMP domain; Region: HAMP; pfam00672 1042878009734 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878009735 dimer interface [polypeptide binding]; other site 1042878009736 phosphorylation site [posttranslational modification] 1042878009737 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878009738 ATP binding site [chemical binding]; other site 1042878009739 Mg2+ binding site [ion binding]; other site 1042878009740 G-X-G motif; other site 1042878009741 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042878009742 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878009743 active site 1042878009744 phosphorylation site [posttranslational modification] 1042878009745 intermolecular recognition site; other site 1042878009746 dimerization interface [polypeptide binding]; other site 1042878009747 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878009748 DNA binding site [nucleotide binding] 1042878009749 recombinase A; Provisional; Region: recA; PRK09354 1042878009750 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 1042878009751 hexamer interface [polypeptide binding]; other site 1042878009752 Walker A motif; other site 1042878009753 ATP binding site [chemical binding]; other site 1042878009754 Walker B motif; other site 1042878009755 RecX family; Region: RecX; cl00936 1042878009756 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 1042878009757 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1042878009758 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1042878009759 CoA-ligase; Region: Ligase_CoA; pfam00549 1042878009760 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1042878009761 CoA binding domain; Region: CoA_binding; smart00881 1042878009762 CoA-ligase; Region: Ligase_CoA; pfam00549 1042878009763 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1042878009764 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1042878009765 O-Antigen ligase; Region: Wzy_C; pfam04932 1042878009766 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1042878009767 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 1042878009768 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 1042878009769 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 1042878009770 trimer interface [polypeptide binding]; other site 1042878009771 dimer interface [polypeptide binding]; other site 1042878009772 putative active site [active] 1042878009773 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1042878009774 Peptidase family M48; Region: Peptidase_M48; pfam01435 1042878009775 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878009776 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878009777 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1042878009778 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1042878009779 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1042878009780 Probable transposase; Region: OrfB_IS605; pfam01385 1042878009781 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878009782 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878009783 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878009784 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878009785 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 1042878009786 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1042878009787 SnoaL-like domain; Region: SnoaL_3; pfam13474 1042878009788 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 1042878009789 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1042878009790 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1042878009791 putative active site [active] 1042878009792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 1042878009793 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1042878009794 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1042878009795 homodimer interface [polypeptide binding]; other site 1042878009796 substrate-cofactor binding pocket; other site 1042878009797 catalytic residue [active] 1042878009798 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1042878009799 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1042878009800 ATP binding site [chemical binding]; other site 1042878009801 putative Mg++ binding site [ion binding]; other site 1042878009802 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042878009803 nucleotide binding region [chemical binding]; other site 1042878009804 ATP-binding site [chemical binding]; other site 1042878009805 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878009806 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 1042878009807 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 1042878009808 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1042878009809 Phosphoglycerate kinase; Region: PGK; pfam00162 1042878009810 substrate binding site [chemical binding]; other site 1042878009811 hinge regions; other site 1042878009812 ADP binding site [chemical binding]; other site 1042878009813 catalytic site [active] 1042878009814 pyruvate kinase; Provisional; Region: PRK05826 1042878009815 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1042878009816 domain interfaces; other site 1042878009817 active site 1042878009818 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1042878009819 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1042878009820 intersubunit interface [polypeptide binding]; other site 1042878009821 active site 1042878009822 zinc binding site [ion binding]; other site 1042878009823 Na+ binding site [ion binding]; other site 1042878009824 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1042878009825 ATP binding site [chemical binding]; other site 1042878009826 active site 1042878009827 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1042878009828 substrate binding site [chemical binding]; other site 1042878009829 AIR carboxylase; Region: AIRC; pfam00731 1042878009830 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1042878009831 ATP-grasp domain; Region: ATP-grasp; pfam02222 1042878009832 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1042878009833 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1042878009834 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 1042878009835 AzlC protein; Region: AzlC; pfam03591 1042878009836 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1042878009837 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1042878009838 MarR family; Region: MarR_2; pfam12802 1042878009839 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1042878009840 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 1042878009841 putative ligand binding site [chemical binding]; other site 1042878009842 hypothetical protein; Provisional; Region: PRK07538 1042878009843 hypothetical protein; Provisional; Region: PRK07236 1042878009844 Predicted membrane protein [Function unknown]; Region: COG4125 1042878009845 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1042878009846 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1042878009847 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878009848 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878009849 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042878009850 dimerization interface [polypeptide binding]; other site 1042878009851 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042878009852 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1042878009853 Protein export membrane protein; Region: SecD_SecF; cl14618 1042878009854 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1042878009855 Protein export membrane protein; Region: SecD_SecF; cl14618 1042878009856 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042878009857 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878009858 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878009859 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042878009860 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878009861 active site 1042878009862 phosphorylation site [posttranslational modification] 1042878009863 intermolecular recognition site; other site 1042878009864 dimerization interface [polypeptide binding]; other site 1042878009865 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878009866 DNA binding site [nucleotide binding] 1042878009867 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1042878009868 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1042878009869 dimerization interface [polypeptide binding]; other site 1042878009870 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1042878009871 dimer interface [polypeptide binding]; other site 1042878009872 phosphorylation site [posttranslational modification] 1042878009873 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878009874 ATP binding site [chemical binding]; other site 1042878009875 Mg2+ binding site [ion binding]; other site 1042878009876 G-X-G motif; other site 1042878009877 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1042878009878 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 1042878009879 putative deacylase active site [active] 1042878009880 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1042878009881 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1042878009882 active site 1042878009883 Int/Topo IB signature motif; other site 1042878009884 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1042878009885 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1042878009886 DNA binding site [nucleotide binding] 1042878009887 active site 1042878009888 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878009889 Predicted permeases [General function prediction only]; Region: COG0679 1042878009890 epoxyqueuosine reductase; Region: TIGR00276 1042878009891 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1042878009892 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1042878009893 AMIN domain; Region: AMIN; pfam11741 1042878009894 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1042878009895 active site 1042878009896 metal binding site [ion binding]; metal-binding site 1042878009897 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1042878009898 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1042878009899 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878009900 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878009901 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1042878009902 putative dimerization interface [polypeptide binding]; other site 1042878009903 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1042878009904 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1042878009905 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878009906 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1042878009907 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1042878009908 NAD binding site [chemical binding]; other site 1042878009909 homodimer interface [polypeptide binding]; other site 1042878009910 homotetramer interface [polypeptide binding]; other site 1042878009911 active site 1042878009912 adenylate kinase; Reviewed; Region: adk; PRK00279 1042878009913 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 1042878009914 AMP-binding site [chemical binding]; other site 1042878009915 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1042878009916 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1042878009917 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1042878009918 Ligand binding site; other site 1042878009919 oligomer interface; other site 1042878009920 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1042878009921 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 1042878009922 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 1042878009923 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1042878009924 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1042878009925 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1042878009926 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1042878009927 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 1042878009928 generic binding surface II; other site 1042878009929 generic binding surface I; other site 1042878009930 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1042878009931 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1042878009932 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1042878009933 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1042878009934 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1042878009935 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878009936 Coenzyme A binding pocket [chemical binding]; other site 1042878009937 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878009938 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1042878009939 dimer interface [polypeptide binding]; other site 1042878009940 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1042878009941 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1042878009942 Probable transposase; Region: OrfB_IS605; pfam01385 1042878009943 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878009944 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1042878009945 Ferredoxin [Energy production and conversion]; Region: COG1146 1042878009946 4Fe-4S binding domain; Region: Fer4; pfam00037 1042878009947 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1042878009948 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878009949 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1042878009950 PBP superfamily domain; Region: PBP_like; pfam12727 1042878009951 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1042878009952 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 1042878009953 putative dimer interface [polypeptide binding]; other site 1042878009954 [2Fe-2S] cluster binding site [ion binding]; other site 1042878009955 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 1042878009956 putative dimer interface [polypeptide binding]; other site 1042878009957 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1042878009958 SLBB domain; Region: SLBB; pfam10531 1042878009959 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1042878009960 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1042878009961 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878009962 catalytic loop [active] 1042878009963 iron binding site [ion binding]; other site 1042878009964 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1042878009965 4Fe-4S binding domain; Region: Fer4; pfam00037 1042878009966 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 1042878009967 [4Fe-4S] binding site [ion binding]; other site 1042878009968 molybdopterin cofactor binding site; other site 1042878009969 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 1042878009970 molybdopterin cofactor binding site; other site 1042878009971 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1042878009972 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 1042878009973 Transglycosylase; Region: Transgly; pfam00912 1042878009974 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1042878009975 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1042878009976 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1042878009977 transmembrane helices; other site 1042878009978 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1042878009979 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1042878009980 propionate/acetate kinase; Provisional; Region: PRK12379 1042878009981 Acetokinase family; Region: Acetate_kinase; cl17229 1042878009982 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 1042878009983 phosphate acetyltransferase; Provisional; Region: PRK11890 1042878009984 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 1042878009985 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 1042878009986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878009987 NAD(P) binding site [chemical binding]; other site 1042878009988 active site 1042878009989 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1042878009990 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1042878009991 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1042878009992 Lysine efflux permease [General function prediction only]; Region: COG1279 1042878009993 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 1042878009994 putative active site [active] 1042878009995 putative metal binding residues [ion binding]; other site 1042878009996 signature motif; other site 1042878009997 putative triphosphate binding site [ion binding]; other site 1042878009998 dimer interface [polypeptide binding]; other site 1042878009999 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878010000 Walker A/P-loop; other site 1042878010001 ATP binding site [chemical binding]; other site 1042878010002 ABC transporter; Region: ABC_tran; pfam00005 1042878010003 Q-loop/lid; other site 1042878010004 ABC transporter signature motif; other site 1042878010005 Walker B; other site 1042878010006 D-loop; other site 1042878010007 H-loop/switch region; other site 1042878010008 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1042878010009 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878010010 putative PBP binding loops; other site 1042878010011 ABC-ATPase subunit interface; other site 1042878010012 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1042878010013 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1042878010014 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1042878010015 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1042878010016 putative ligand binding site [chemical binding]; other site 1042878010017 NAD binding site [chemical binding]; other site 1042878010018 catalytic site [active] 1042878010019 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 1042878010020 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1042878010021 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1042878010022 mce related protein; Region: MCE; pfam02470 1042878010023 mce related protein; Region: MCE; pfam02470 1042878010024 mce related protein; Region: MCE; pfam02470 1042878010025 Paraquat-inducible protein A; Region: PqiA; pfam04403 1042878010026 Paraquat-inducible protein A; Region: PqiA; pfam04403 1042878010027 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1042878010028 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1042878010029 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 1042878010030 HPP family; Region: HPP; pfam04982 1042878010031 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1042878010032 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 1042878010033 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1042878010034 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 1042878010035 Cl- selectivity filter; other site 1042878010036 Cl- binding residues [ion binding]; other site 1042878010037 pore gating glutamate residue; other site 1042878010038 dimer interface [polypeptide binding]; other site 1042878010039 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1042878010040 FOG: CBS domain [General function prediction only]; Region: COG0517 1042878010041 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 1042878010042 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042878010043 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1042878010044 putative DNA binding site [nucleotide binding]; other site 1042878010045 putative Zn2+ binding site [ion binding]; other site 1042878010046 AsnC family; Region: AsnC_trans_reg; pfam01037 1042878010047 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 1042878010048 Amidinotransferase; Region: Amidinotransf; cl12043 1042878010049 Probable transposase; Region: OrfB_IS605; pfam01385 1042878010050 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878010051 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1042878010052 ornithine cyclodeaminase; Validated; Region: PRK07589 1042878010053 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1042878010054 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 1042878010055 DNA binding residues [nucleotide binding] 1042878010056 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1042878010057 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878010058 active site 1042878010059 phosphorylation site [posttranslational modification] 1042878010060 intermolecular recognition site; other site 1042878010061 dimerization interface [polypeptide binding]; other site 1042878010062 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878010063 Walker A motif; other site 1042878010064 ATP binding site [chemical binding]; other site 1042878010065 Walker B motif; other site 1042878010066 arginine finger; other site 1042878010067 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878010068 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1042878010069 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878010070 dimer interface [polypeptide binding]; other site 1042878010071 phosphorylation site [posttranslational modification] 1042878010072 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878010073 ATP binding site [chemical binding]; other site 1042878010074 Mg2+ binding site [ion binding]; other site 1042878010075 G-X-G motif; other site 1042878010076 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1042878010077 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042878010078 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878010079 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042878010080 putative substrate translocation pore; other site 1042878010081 urocanate hydratase; Provisional; Region: PRK05414 1042878010082 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1042878010083 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878010084 DNA-binding site [nucleotide binding]; DNA binding site 1042878010085 UTRA domain; Region: UTRA; pfam07702 1042878010086 putative diguanylate cyclase; Provisional; Region: PRK09776 1042878010087 MASE1; Region: MASE1; cl17823 1042878010088 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878010089 putative active site [active] 1042878010090 heme pocket [chemical binding]; other site 1042878010091 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878010092 heme pocket [chemical binding]; other site 1042878010093 putative active site [active] 1042878010094 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1042878010095 putative active site [active] 1042878010096 heme pocket [chemical binding]; other site 1042878010097 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878010098 metal binding site [ion binding]; metal-binding site 1042878010099 active site 1042878010100 I-site; other site 1042878010101 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1042878010102 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1042878010103 SnoaL-like domain; Region: SnoaL_2; pfam12680 1042878010104 Cytochrome c; Region: Cytochrom_C; pfam00034 1042878010105 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1042878010106 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 1042878010107 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878010108 catalytic loop [active] 1042878010109 iron binding site [ion binding]; other site 1042878010110 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042878010111 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1042878010112 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042878010113 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878010114 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878010115 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1042878010116 Putative zinc-finger; Region: zf-HC2; pfam13490 1042878010117 RNA polymerase sigma factor; Provisional; Region: PRK12533 1042878010118 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878010119 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1042878010120 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1042878010121 active site 1042878010122 metal binding site [ion binding]; metal-binding site 1042878010123 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1042878010124 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878010125 substrate binding pocket [chemical binding]; other site 1042878010126 membrane-bound complex binding site; other site 1042878010127 hinge residues; other site 1042878010128 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1042878010129 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1042878010130 catalytic residue [active] 1042878010131 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1042878010132 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1042878010133 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1042878010134 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1042878010135 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 1042878010136 oligomerisation interface [polypeptide binding]; other site 1042878010137 mobile loop; other site 1042878010138 roof hairpin; other site 1042878010139 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1042878010140 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 1042878010141 ring oligomerisation interface [polypeptide binding]; other site 1042878010142 ATP/Mg binding site [chemical binding]; other site 1042878010143 stacking interactions; other site 1042878010144 hinge regions; other site 1042878010145 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 1042878010146 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1042878010147 putative active site [active] 1042878010148 putative metal binding site [ion binding]; other site 1042878010149 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1042878010150 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1042878010151 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1042878010152 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1042878010153 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1042878010154 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1042878010155 ATP binding site [chemical binding]; other site 1042878010156 Walker A motif; other site 1042878010157 hexamer interface [polypeptide binding]; other site 1042878010158 Walker B motif; other site 1042878010159 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 1042878010160 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878010161 intermolecular recognition site; other site 1042878010162 active site 1042878010163 dimerization interface [polypeptide binding]; other site 1042878010164 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 1042878010165 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 1042878010166 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1042878010167 TadE-like protein; Region: TadE; pfam07811 1042878010168 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1042878010169 TadE-like protein; Region: TadE; pfam07811 1042878010170 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1042878010171 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 1042878010172 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1042878010173 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1042878010174 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1042878010175 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1042878010176 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1042878010177 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878010178 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1042878010179 Walker A motif; other site 1042878010180 ATP binding site [chemical binding]; other site 1042878010181 Walker B motif; other site 1042878010182 arginine finger; other site 1042878010183 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1042878010184 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 1042878010185 Flp/Fap pilin component; Region: Flp_Fap; pfam04964 1042878010186 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 1042878010187 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 1042878010188 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1042878010189 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1042878010190 Ligand binding site; other site 1042878010191 Putative Catalytic site; other site 1042878010192 DXD motif; other site 1042878010193 Predicted membrane protein [Function unknown]; Region: COG2246 1042878010194 GtrA-like protein; Region: GtrA; pfam04138 1042878010195 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1042878010196 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878010197 S-adenosylmethionine binding site [chemical binding]; other site 1042878010198 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 1042878010199 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878010200 Walker A motif; other site 1042878010201 ATP binding site [chemical binding]; other site 1042878010202 Walker B motif; other site 1042878010203 arginine finger; other site 1042878010204 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878010205 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042878010206 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878010207 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1042878010208 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1042878010209 dimerization interface [polypeptide binding]; other site 1042878010210 substrate binding pocket [chemical binding]; other site 1042878010211 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878010212 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878010213 putative substrate translocation pore; other site 1042878010214 Repair protein; Region: Repair_PSII; cl01535 1042878010215 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1042878010216 Repair protein; Region: Repair_PSII; pfam04536 1042878010217 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1042878010218 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1042878010219 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1042878010220 inhibitor-cofactor binding pocket; inhibition site 1042878010221 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878010222 catalytic residue [active] 1042878010223 Rubredoxin [Energy production and conversion]; Region: COG1773 1042878010224 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1042878010225 iron binding site [ion binding]; other site 1042878010226 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878010227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878010228 active site 1042878010229 phosphorylation site [posttranslational modification] 1042878010230 intermolecular recognition site; other site 1042878010231 dimerization interface [polypeptide binding]; other site 1042878010232 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878010233 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878010234 active site 1042878010235 phosphorylation site [posttranslational modification] 1042878010236 intermolecular recognition site; other site 1042878010237 dimerization interface [polypeptide binding]; other site 1042878010238 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1042878010239 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1042878010240 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042878010241 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042878010242 dimer interface [polypeptide binding]; other site 1042878010243 putative CheW interface [polypeptide binding]; other site 1042878010244 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1042878010245 putative binding surface; other site 1042878010246 active site 1042878010247 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1042878010248 putative binding surface; other site 1042878010249 active site 1042878010250 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1042878010251 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1042878010252 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878010253 ATP binding site [chemical binding]; other site 1042878010254 Mg2+ binding site [ion binding]; other site 1042878010255 G-X-G motif; other site 1042878010256 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1042878010257 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878010258 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878010259 active site 1042878010260 phosphorylation site [posttranslational modification] 1042878010261 intermolecular recognition site; other site 1042878010262 dimerization interface [polypeptide binding]; other site 1042878010263 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878010264 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878010265 putative substrate translocation pore; other site 1042878010266 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878010267 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1042878010268 NAD(P) binding site [chemical binding]; other site 1042878010269 active site 1042878010270 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878010271 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 1042878010272 NAD(P) binding site [chemical binding]; other site 1042878010273 catalytic residues [active] 1042878010274 catalytic residues [active] 1042878010275 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 1042878010276 dimer interface [polypeptide binding]; other site 1042878010277 substrate binding site [chemical binding]; other site 1042878010278 metal binding sites [ion binding]; metal-binding site 1042878010279 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1042878010280 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1042878010281 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1042878010282 NAD synthetase; Reviewed; Region: nadE; PRK02628 1042878010283 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1042878010284 multimer interface [polypeptide binding]; other site 1042878010285 active site 1042878010286 catalytic triad [active] 1042878010287 protein interface 1 [polypeptide binding]; other site 1042878010288 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 1042878010289 homodimer interface [polypeptide binding]; other site 1042878010290 NAD binding pocket [chemical binding]; other site 1042878010291 ATP binding pocket [chemical binding]; other site 1042878010292 Mg binding site [ion binding]; other site 1042878010293 active-site loop [active] 1042878010294 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1042878010295 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1042878010296 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 1042878010297 gating phenylalanine in ion channel; other site 1042878010298 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1042878010299 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1042878010300 conserved cys residue [active] 1042878010301 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878010302 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878010303 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1042878010304 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1042878010305 Predicted membrane protein [Function unknown]; Region: COG2860 1042878010306 UPF0126 domain; Region: UPF0126; pfam03458 1042878010307 UPF0126 domain; Region: UPF0126; pfam03458 1042878010308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1042878010309 Smr domain; Region: Smr; pfam01713 1042878010310 thioredoxin reductase; Provisional; Region: PRK10262 1042878010311 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878010312 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878010313 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1042878010314 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1042878010315 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1042878010316 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1042878010317 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1042878010318 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1042878010319 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 1042878010320 tetramer interface [polypeptide binding]; other site 1042878010321 catalytic Zn binding site [ion binding]; other site 1042878010322 NADP binding site [chemical binding]; other site 1042878010323 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1042878010324 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1042878010325 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1042878010326 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878010327 dimer interface [polypeptide binding]; other site 1042878010328 conserved gate region; other site 1042878010329 putative PBP binding loops; other site 1042878010330 ABC-ATPase subunit interface; other site 1042878010331 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1042878010332 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1042878010333 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1042878010334 Walker A/P-loop; other site 1042878010335 ATP binding site [chemical binding]; other site 1042878010336 Q-loop/lid; other site 1042878010337 ABC transporter signature motif; other site 1042878010338 Walker B; other site 1042878010339 D-loop; other site 1042878010340 H-loop/switch region; other site 1042878010341 TOBE domain; Region: TOBE_2; pfam08402 1042878010342 recombination factor protein RarA; Reviewed; Region: PRK13342 1042878010343 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878010344 Walker A motif; other site 1042878010345 ATP binding site [chemical binding]; other site 1042878010346 Walker B motif; other site 1042878010347 arginine finger; other site 1042878010348 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1042878010349 seryl-tRNA synthetase; Provisional; Region: PRK05431 1042878010350 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1042878010351 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 1042878010352 dimer interface [polypeptide binding]; other site 1042878010353 active site 1042878010354 motif 1; other site 1042878010355 motif 2; other site 1042878010356 motif 3; other site 1042878010357 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1042878010358 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 1042878010359 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1042878010360 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1042878010361 active site 1042878010362 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1042878010363 Domain of unknown function DUF21; Region: DUF21; pfam01595 1042878010364 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1042878010365 Transporter associated domain; Region: CorC_HlyC; smart01091 1042878010366 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1042878010367 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878010368 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878010369 dimerization interface [polypeptide binding]; other site 1042878010370 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1042878010371 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042878010372 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042878010373 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1042878010374 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878010375 substrate binding pocket [chemical binding]; other site 1042878010376 membrane-bound complex binding site; other site 1042878010377 hinge residues; other site 1042878010378 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878010379 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878010380 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878010381 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042878010382 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878010383 substrate binding pocket [chemical binding]; other site 1042878010384 membrane-bound complex binding site; other site 1042878010385 hinge residues; other site 1042878010386 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042878010387 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878010388 dimer interface [polypeptide binding]; other site 1042878010389 conserved gate region; other site 1042878010390 putative PBP binding loops; other site 1042878010391 ABC-ATPase subunit interface; other site 1042878010392 cyanophycin synthetase; Provisional; Region: PRK14016 1042878010393 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1042878010394 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042878010395 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1042878010396 cyanophycin synthetase; Provisional; Region: PRK14016 1042878010397 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1042878010398 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042878010399 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1042878010400 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1042878010401 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042878010402 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 1042878010403 Walker A/P-loop; other site 1042878010404 ATP binding site [chemical binding]; other site 1042878010405 Q-loop/lid; other site 1042878010406 ABC transporter signature motif; other site 1042878010407 Walker B; other site 1042878010408 D-loop; other site 1042878010409 H-loop/switch region; other site 1042878010410 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 1042878010411 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 1042878010412 Fimbrial protein; Region: Fimbrial; cl01416 1042878010413 PAS domain S-box; Region: sensory_box; TIGR00229 1042878010414 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878010415 putative active site [active] 1042878010416 heme pocket [chemical binding]; other site 1042878010417 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1042878010418 Histidine kinase; Region: HisKA_3; pfam07730 1042878010419 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878010420 ATP binding site [chemical binding]; other site 1042878010421 Mg2+ binding site [ion binding]; other site 1042878010422 G-X-G motif; other site 1042878010423 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878010424 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878010425 active site 1042878010426 phosphorylation site [posttranslational modification] 1042878010427 intermolecular recognition site; other site 1042878010428 dimerization interface [polypeptide binding]; other site 1042878010429 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878010430 DNA binding residues [nucleotide binding] 1042878010431 dimerization interface [polypeptide binding]; other site 1042878010432 cytosine deaminase; Provisional; Region: PRK05985 1042878010433 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1042878010434 active site 1042878010435 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 1042878010436 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1042878010437 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1042878010438 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1042878010439 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042878010440 motif II; other site 1042878010441 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1042878010442 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878010443 S-adenosylmethionine binding site [chemical binding]; other site 1042878010444 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1042878010445 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042878010446 ligand binding site [chemical binding]; other site 1042878010447 DNA gyrase subunit A; Validated; Region: PRK05560 1042878010448 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1042878010449 CAP-like domain; other site 1042878010450 active site 1042878010451 primary dimer interface [polypeptide binding]; other site 1042878010452 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042878010453 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042878010454 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042878010455 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042878010456 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042878010457 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042878010458 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 1042878010459 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 1042878010460 homodimer interface [polypeptide binding]; other site 1042878010461 substrate-cofactor binding pocket; other site 1042878010462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878010463 catalytic residue [active] 1042878010464 Chorismate mutase type II; Region: CM_2; cl00693 1042878010465 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1042878010466 Prephenate dehydratase; Region: PDT; pfam00800 1042878010467 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 1042878010468 putative L-Phe binding site [chemical binding]; other site 1042878010469 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1042878010470 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878010471 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878010472 homodimer interface [polypeptide binding]; other site 1042878010473 catalytic residue [active] 1042878010474 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 1042878010475 prephenate dehydrogenase; Validated; Region: PRK08507 1042878010476 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1042878010477 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 1042878010478 hinge; other site 1042878010479 active site 1042878010480 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 1042878010481 cytidylate kinase; Provisional; Region: cmk; PRK00023 1042878010482 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 1042878010483 CMP-binding site; other site 1042878010484 The sites determining sugar specificity; other site 1042878010485 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1042878010486 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1042878010487 RNA binding site [nucleotide binding]; other site 1042878010488 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1042878010489 RNA binding site [nucleotide binding]; other site 1042878010490 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 1042878010491 RNA binding site [nucleotide binding]; other site 1042878010492 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 1042878010493 RNA binding site [nucleotide binding]; other site 1042878010494 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 1042878010495 RNA binding site [nucleotide binding]; other site 1042878010496 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 1042878010497 RNA binding site [nucleotide binding]; other site 1042878010498 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1042878010499 IHF dimer interface [polypeptide binding]; other site 1042878010500 IHF - DNA interface [nucleotide binding]; other site 1042878010501 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1042878010502 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042878010503 binding surface 1042878010504 TPR motif; other site 1042878010505 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1042878010506 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1042878010507 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1042878010508 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1042878010509 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 1042878010510 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1042878010511 putative ribose interaction site [chemical binding]; other site 1042878010512 putative ADP binding site [chemical binding]; other site 1042878010513 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1042878010514 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1042878010515 NADP binding site [chemical binding]; other site 1042878010516 homopentamer interface [polypeptide binding]; other site 1042878010517 substrate binding site [chemical binding]; other site 1042878010518 active site 1042878010519 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 1042878010520 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1042878010521 cysteine synthase B; Region: cysM; TIGR01138 1042878010522 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 1042878010523 dimer interface [polypeptide binding]; other site 1042878010524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878010525 catalytic residue [active] 1042878010526 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1042878010527 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1042878010528 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1042878010529 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1042878010530 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1042878010531 putative active site [active] 1042878010532 Zn binding site [ion binding]; other site 1042878010533 enoyl-CoA hydratase; Validated; Region: PRK08139 1042878010534 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878010535 substrate binding site [chemical binding]; other site 1042878010536 oxyanion hole (OAH) forming residues; other site 1042878010537 trimer interface [polypeptide binding]; other site 1042878010538 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1042878010539 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1042878010540 Walker A/P-loop; other site 1042878010541 ATP binding site [chemical binding]; other site 1042878010542 Q-loop/lid; other site 1042878010543 ABC transporter signature motif; other site 1042878010544 Walker B; other site 1042878010545 D-loop; other site 1042878010546 H-loop/switch region; other site 1042878010547 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1042878010548 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878010549 ABC-ATPase subunit interface; other site 1042878010550 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1042878010551 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1042878010552 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1042878010553 Ligand binding site [chemical binding]; other site 1042878010554 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1042878010555 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1042878010556 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1042878010557 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1042878010558 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1042878010559 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1042878010560 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878010561 active site 1042878010562 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1042878010563 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1042878010564 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878010565 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1042878010566 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878010567 putative DNA binding site [nucleotide binding]; other site 1042878010568 putative Zn2+ binding site [ion binding]; other site 1042878010569 AsnC family; Region: AsnC_trans_reg; pfam01037 1042878010570 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1042878010571 Winged helix-turn helix; Region: HTH_29; pfam13551 1042878010572 Homeodomain-like domain; Region: HTH_32; pfam13565 1042878010573 Integrase core domain; Region: rve; pfam00665 1042878010574 Integrase core domain; Region: rve_3; pfam13683 1042878010575 Transposase; Region: HTH_Tnp_1; cl17663 1042878010576 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1042878010577 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878010578 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878010579 putative effector binding pocket; other site 1042878010580 dimerization interface [polypeptide binding]; other site 1042878010581 TM2 domain; Region: TM2; pfam05154 1042878010582 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1042878010583 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1042878010584 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1042878010585 RimM N-terminal domain; Region: RimM; pfam01782 1042878010586 PRC-barrel domain; Region: PRC; pfam05239 1042878010587 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1042878010588 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1042878010589 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 1042878010590 putative active site [active] 1042878010591 putative CoA binding site [chemical binding]; other site 1042878010592 nudix motif; other site 1042878010593 metal binding site [ion binding]; metal-binding site 1042878010594 rhodanese superfamily protein; Provisional; Region: PRK05320 1042878010595 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1042878010596 active site residue [active] 1042878010597 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1042878010598 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1042878010599 putative active site [active] 1042878010600 putative PHP Thumb interface [polypeptide binding]; other site 1042878010601 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1042878010602 generic binding surface I; other site 1042878010603 generic binding surface II; other site 1042878010604 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1042878010605 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1042878010606 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1042878010607 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1042878010608 putative metal binding site; other site 1042878010609 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1042878010610 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1042878010611 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042878010612 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1042878010613 Walker A/P-loop; other site 1042878010614 ATP binding site [chemical binding]; other site 1042878010615 Q-loop/lid; other site 1042878010616 ABC transporter signature motif; other site 1042878010617 Walker B; other site 1042878010618 D-loop; other site 1042878010619 H-loop/switch region; other site 1042878010620 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1042878010621 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1042878010622 putative active site [active] 1042878010623 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1042878010624 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1042878010625 ribonuclease G; Provisional; Region: PRK11712 1042878010626 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 1042878010627 homodimer interface [polypeptide binding]; other site 1042878010628 oligonucleotide binding site [chemical binding]; other site 1042878010629 Maf-like protein; Region: Maf; pfam02545 1042878010630 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 1042878010631 active site 1042878010632 dimer interface [polypeptide binding]; other site 1042878010633 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1042878010634 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1042878010635 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1042878010636 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1042878010637 active site 1042878010638 (T/H)XGH motif; other site 1042878010639 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1042878010640 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1042878010641 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1042878010642 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1042878010643 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1042878010644 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1042878010645 hypothetical protein; Validated; Region: PRK00110 1042878010646 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1042878010647 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1042878010648 Walker A motif; other site 1042878010649 ATP binding site [chemical binding]; other site 1042878010650 Zonular occludens toxin (Zot); Region: Zot; cl17485 1042878010651 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1042878010652 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 1042878010653 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042878010654 active site 1042878010655 benzoate transport; Region: 2A0115; TIGR00895 1042878010656 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878010657 putative substrate translocation pore; other site 1042878010658 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042878010659 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042878010660 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1042878010661 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1042878010662 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878010663 catalytic loop [active] 1042878010664 iron binding site [ion binding]; other site 1042878010665 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042878010666 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042878010667 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1042878010668 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878010669 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1042878010670 N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia. CSHase is involved in one of the two alternative pathways for creatinine degradation to glycine in microorganisms.This...; Region: CSHase; cd01015 1042878010671 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878010672 catalytic triad [active] 1042878010673 substrate binding site [chemical binding]; other site 1042878010674 domain interfaces; other site 1042878010675 conserved cis-peptide bond; other site 1042878010676 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878010677 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878010678 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 1042878010679 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878010680 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1042878010681 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042878010682 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878010683 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878010684 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1042878010685 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1042878010686 EamA-like transporter family; Region: EamA; pfam00892 1042878010687 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1042878010688 EamA-like transporter family; Region: EamA; pfam00892 1042878010689 short chain dehydrogenase; Provisional; Region: PRK08339 1042878010690 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1042878010691 putative NAD(P) binding site [chemical binding]; other site 1042878010692 putative active site [active] 1042878010693 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1042878010694 active site 1042878010695 dimer interfaces [polypeptide binding]; other site 1042878010696 catalytic residues [active] 1042878010697 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1042878010698 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1042878010699 NADP binding site [chemical binding]; other site 1042878010700 dimer interface [polypeptide binding]; other site 1042878010701 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1042878010702 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1042878010703 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1042878010704 putative ligand binding site [chemical binding]; other site 1042878010705 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1042878010706 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878010707 TM-ABC transporter signature motif; other site 1042878010708 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878010709 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1042878010710 TM-ABC transporter signature motif; other site 1042878010711 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1042878010712 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1042878010713 Walker A/P-loop; other site 1042878010714 ATP binding site [chemical binding]; other site 1042878010715 Q-loop/lid; other site 1042878010716 ABC transporter signature motif; other site 1042878010717 Walker B; other site 1042878010718 D-loop; other site 1042878010719 H-loop/switch region; other site 1042878010720 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1042878010721 Pirin-related protein [General function prediction only]; Region: COG1741 1042878010722 Pirin; Region: Pirin; pfam02678 1042878010723 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1042878010724 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878010725 dimer interface [polypeptide binding]; other site 1042878010726 conserved gate region; other site 1042878010727 putative PBP binding loops; other site 1042878010728 ABC-ATPase subunit interface; other site 1042878010729 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1042878010730 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878010731 dimer interface [polypeptide binding]; other site 1042878010732 conserved gate region; other site 1042878010733 ABC-ATPase subunit interface; other site 1042878010734 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1042878010735 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1042878010736 Walker A/P-loop; other site 1042878010737 ATP binding site [chemical binding]; other site 1042878010738 Q-loop/lid; other site 1042878010739 ABC transporter signature motif; other site 1042878010740 Walker B; other site 1042878010741 D-loop; other site 1042878010742 H-loop/switch region; other site 1042878010743 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc; cd04582 1042878010744 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 1042878010745 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878010746 FeS/SAM binding site; other site 1042878010747 HemN C-terminal domain; Region: HemN_C; pfam06969 1042878010748 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 1042878010749 active site 1042878010750 dimerization interface [polypeptide binding]; other site 1042878010751 ribonuclease PH; Reviewed; Region: rph; PRK00173 1042878010752 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1042878010753 hexamer interface [polypeptide binding]; other site 1042878010754 active site 1042878010755 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 1042878010756 active site 1042878010757 Protein kinase domain; Region: Pkinase; pfam00069 1042878010758 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1042878010759 active site 1042878010760 ATP binding site [chemical binding]; other site 1042878010761 substrate binding site [chemical binding]; other site 1042878010762 activation loop (A-loop); other site 1042878010763 hypothetical protein; Provisional; Region: PRK11820 1042878010764 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1042878010765 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1042878010766 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1042878010767 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 1042878010768 catalytic site [active] 1042878010769 G-X2-G-X-G-K; other site 1042878010770 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1042878010771 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1042878010772 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042878010773 Zn2+ binding site [ion binding]; other site 1042878010774 Mg2+ binding site [ion binding]; other site 1042878010775 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1042878010776 synthetase active site [active] 1042878010777 NTP binding site [chemical binding]; other site 1042878010778 metal binding site [ion binding]; metal-binding site 1042878010779 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1042878010780 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 1042878010781 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1042878010782 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1042878010783 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1042878010784 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1042878010785 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1042878010786 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878010787 DNA-binding site [nucleotide binding]; DNA binding site 1042878010788 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878010789 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878010790 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878010791 homodimer interface [polypeptide binding]; other site 1042878010792 catalytic residue [active] 1042878010793 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1042878010794 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 1042878010795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 1042878010796 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1042878010797 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1042878010798 Probable transposase; Region: OrfB_IS605; pfam01385 1042878010799 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878010800 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1042878010801 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 1042878010802 Domain of unknown function (DUF333); Region: DUF333; pfam03891 1042878010803 PAS domain; Region: PAS_9; pfam13426 1042878010804 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878010805 PAS domain; Region: PAS_9; pfam13426 1042878010806 putative active site [active] 1042878010807 heme pocket [chemical binding]; other site 1042878010808 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042878010809 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878010810 metal binding site [ion binding]; metal-binding site 1042878010811 active site 1042878010812 I-site; other site 1042878010813 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878010814 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878010815 DNA-binding site [nucleotide binding]; DNA binding site 1042878010816 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878010817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878010818 homodimer interface [polypeptide binding]; other site 1042878010819 catalytic residue [active] 1042878010820 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1042878010821 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878010822 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042878010823 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 1042878010824 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 1042878010825 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1042878010826 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1042878010827 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1042878010828 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042878010829 ligand binding site [chemical binding]; other site 1042878010830 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1042878010831 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1042878010832 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1042878010833 catalytic residue [active] 1042878010834 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878010835 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878010836 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878010837 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1042878010838 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1042878010839 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1042878010840 putative active site [active] 1042878010841 putative metal binding site [ion binding]; other site 1042878010842 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042878010843 FAD binding domain; Region: FAD_binding_4; pfam01565 1042878010844 Berberine and berberine like; Region: BBE; pfam08031 1042878010845 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1042878010846 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1042878010847 AMP binding site [chemical binding]; other site 1042878010848 metal binding site [ion binding]; metal-binding site 1042878010849 active site 1042878010850 aminopeptidase N; Provisional; Region: pepN; PRK14015 1042878010851 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1042878010852 active site 1042878010853 Zn binding site [ion binding]; other site 1042878010854 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1042878010855 malic enzyme; Reviewed; Region: PRK12862 1042878010856 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1042878010857 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1042878010858 putative NAD(P) binding site [chemical binding]; other site 1042878010859 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1042878010860 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878010861 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878010862 trimer interface [polypeptide binding]; other site 1042878010863 eyelet of channel; other site 1042878010864 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 1042878010865 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1042878010866 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1042878010867 active site 1042878010868 catalytic site [active] 1042878010869 tetramer interface [polypeptide binding]; other site 1042878010870 xanthine permease; Region: pbuX; TIGR03173 1042878010871 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878010872 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878010873 DNA-binding site [nucleotide binding]; DNA binding site 1042878010874 FCD domain; Region: FCD; pfam07729 1042878010875 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1042878010876 active site 1042878010877 homotetramer interface [polypeptide binding]; other site 1042878010878 Predicted membrane protein [Function unknown]; Region: COG3748 1042878010879 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1042878010880 Cytochrome c; Region: Cytochrom_C; pfam00034 1042878010881 Predicted membrane protein [Function unknown]; Region: COG2119 1042878010882 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1042878010883 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1042878010884 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1042878010885 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 1042878010886 putative di-iron ligands [ion binding]; other site 1042878010887 guanine deaminase; Provisional; Region: PRK09228 1042878010888 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 1042878010889 active site 1042878010890 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1042878010891 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 1042878010892 active site 1042878010893 purine riboside binding site [chemical binding]; other site 1042878010894 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1042878010895 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1042878010896 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1042878010897 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1042878010898 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042878010899 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878010900 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1042878010901 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878010902 catalytic loop [active] 1042878010903 iron binding site [ion binding]; other site 1042878010904 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042878010905 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1042878010906 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878010907 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878010908 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 1042878010909 putative substrate binding pocket [chemical binding]; other site 1042878010910 putative dimerization interface [polypeptide binding]; other site 1042878010911 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 1042878010912 PBP superfamily domain; Region: PBP_like_2; pfam12849 1042878010913 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1042878010914 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]; Region: COG1910 1042878010915 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 1042878010916 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1042878010917 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1042878010918 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1042878010919 apolar tunnel; other site 1042878010920 heme binding site [chemical binding]; other site 1042878010921 dimerization interface [polypeptide binding]; other site 1042878010922 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1042878010923 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1042878010924 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878010925 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878010926 Bacterial transcriptional repressor; Region: TetR; pfam13972 1042878010927 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1042878010928 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042878010929 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 1042878010930 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1042878010931 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1042878010932 putative active site [active] 1042878010933 putative metal binding site [ion binding]; other site 1042878010934 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878010935 RDD family; Region: RDD; pfam06271 1042878010936 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 1042878010937 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 1042878010938 RNA polymerase factor sigma-70; Validated; Region: PRK09047 1042878010939 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878010940 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042878010941 DNA binding residues [nucleotide binding] 1042878010942 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 1042878010943 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042878010944 PYR/PP interface [polypeptide binding]; other site 1042878010945 dimer interface [polypeptide binding]; other site 1042878010946 TPP binding site [chemical binding]; other site 1042878010947 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042878010948 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1042878010949 TPP-binding site [chemical binding]; other site 1042878010950 dimer interface [polypeptide binding]; other site 1042878010951 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1042878010952 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1042878010953 putative valine binding site [chemical binding]; other site 1042878010954 dimer interface [polypeptide binding]; other site 1042878010955 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1042878010956 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1042878010957 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1042878010958 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1042878010959 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1042878010960 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1042878010961 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1042878010962 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1042878010963 BON domain; Region: BON; pfam04972 1042878010964 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1042878010965 2-isopropylmalate synthase; Validated; Region: PRK00915 1042878010966 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1042878010967 active site 1042878010968 catalytic residues [active] 1042878010969 metal binding site [ion binding]; metal-binding site 1042878010970 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1042878010971 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878010972 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 1042878010973 putative ligand binding site [chemical binding]; other site 1042878010974 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 1042878010975 16S/18S rRNA binding site [nucleotide binding]; other site 1042878010976 S13e-L30e interaction site [polypeptide binding]; other site 1042878010977 25S rRNA binding site [nucleotide binding]; other site 1042878010978 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1042878010979 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1042878010980 RNase E interface [polypeptide binding]; other site 1042878010981 trimer interface [polypeptide binding]; other site 1042878010982 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1042878010983 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1042878010984 RNase E interface [polypeptide binding]; other site 1042878010985 trimer interface [polypeptide binding]; other site 1042878010986 active site 1042878010987 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 1042878010988 putative nucleic acid binding region [nucleotide binding]; other site 1042878010989 G-X-X-G motif; other site 1042878010990 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 1042878010991 RNA binding site [nucleotide binding]; other site 1042878010992 domain interface; other site 1042878010993 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1042878010994 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1042878010995 NAD(P) binding site [chemical binding]; other site 1042878010996 triosephosphate isomerase; Provisional; Region: PRK14567 1042878010997 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 1042878010998 substrate binding site [chemical binding]; other site 1042878010999 dimer interface [polypeptide binding]; other site 1042878011000 catalytic triad [active] 1042878011001 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1042878011002 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1042878011003 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1042878011004 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1042878011005 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1042878011006 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1042878011007 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1042878011008 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1042878011009 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 1042878011010 putative dimer interface [polypeptide binding]; other site 1042878011011 [2Fe-2S] cluster binding site [ion binding]; other site 1042878011012 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1042878011013 SLBB domain; Region: SLBB; pfam10531 1042878011014 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1042878011015 NADH dehydrogenase subunit G; Validated; Region: PRK09129 1042878011016 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878011017 catalytic loop [active] 1042878011018 iron binding site [ion binding]; other site 1042878011019 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1042878011020 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 1042878011021 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 1042878011022 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1042878011023 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1042878011024 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1042878011025 4Fe-4S binding domain; Region: Fer4; cl02805 1042878011026 4Fe-4S binding domain; Region: Fer4; pfam00037 1042878011027 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1042878011028 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1042878011029 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1042878011030 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1042878011031 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1042878011032 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1042878011033 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1042878011034 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1042878011035 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1042878011036 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1042878011037 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 1042878011038 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 1042878011039 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1042878011040 dimer interface [polypeptide binding]; other site 1042878011041 ADP-ribose binding site [chemical binding]; other site 1042878011042 active site 1042878011043 nudix motif; other site 1042878011044 metal binding site [ion binding]; metal-binding site 1042878011045 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 1042878011046 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1042878011047 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 1042878011048 FAD binding site [chemical binding]; other site 1042878011049 substrate binding site [chemical binding]; other site 1042878011050 catalytic base [active] 1042878011051 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 1042878011052 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1042878011053 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1042878011054 active site 1042878011055 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 1042878011056 putative active site [active] 1042878011057 putative catalytic site [active] 1042878011058 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 1042878011059 putative active site [active] 1042878011060 putative catalytic site [active] 1042878011061 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1042878011062 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1042878011063 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1042878011064 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1042878011065 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1042878011066 D-pathway; other site 1042878011067 Putative ubiquinol binding site [chemical binding]; other site 1042878011068 Low-spin heme (heme b) binding site [chemical binding]; other site 1042878011069 Putative water exit pathway; other site 1042878011070 Binuclear center (heme o3/CuB) [ion binding]; other site 1042878011071 K-pathway; other site 1042878011072 Putative proton exit pathway; other site 1042878011073 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 1042878011074 Subunit I/III interface [polypeptide binding]; other site 1042878011075 Subunit III/IV interface [polypeptide binding]; other site 1042878011076 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 1042878011077 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878011078 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1042878011079 putative ligand binding site [chemical binding]; other site 1042878011080 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878011081 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878011082 TM-ABC transporter signature motif; other site 1042878011083 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1042878011084 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878011085 TM-ABC transporter signature motif; other site 1042878011086 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1042878011087 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878011088 Walker A/P-loop; other site 1042878011089 ATP binding site [chemical binding]; other site 1042878011090 Q-loop/lid; other site 1042878011091 ABC transporter signature motif; other site 1042878011092 Walker B; other site 1042878011093 D-loop; other site 1042878011094 H-loop/switch region; other site 1042878011095 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1042878011096 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878011097 Walker A/P-loop; other site 1042878011098 ATP binding site [chemical binding]; other site 1042878011099 Q-loop/lid; other site 1042878011100 ABC transporter signature motif; other site 1042878011101 Walker B; other site 1042878011102 D-loop; other site 1042878011103 H-loop/switch region; other site 1042878011104 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1042878011105 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 1042878011106 alpha-gamma subunit interface [polypeptide binding]; other site 1042878011107 beta-gamma subunit interface [polypeptide binding]; other site 1042878011108 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 1042878011109 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 1042878011110 gamma-beta subunit interface [polypeptide binding]; other site 1042878011111 alpha-beta subunit interface [polypeptide binding]; other site 1042878011112 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1042878011113 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 1042878011114 subunit interactions [polypeptide binding]; other site 1042878011115 active site 1042878011116 flap region; other site 1042878011117 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 1042878011118 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 1042878011119 dimer interface [polypeptide binding]; other site 1042878011120 catalytic residues [active] 1042878011121 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1042878011122 UreF; Region: UreF; pfam01730 1042878011123 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1042878011124 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1042878011125 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 1042878011126 C-terminal domain interface [polypeptide binding]; other site 1042878011127 GSH binding site (G-site) [chemical binding]; other site 1042878011128 dimer interface [polypeptide binding]; other site 1042878011129 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1042878011130 N-terminal domain interface [polypeptide binding]; other site 1042878011131 putative dimer interface [polypeptide binding]; other site 1042878011132 active site 1042878011133 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878011134 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 1042878011135 FAD binding site [chemical binding]; other site 1042878011136 substrate binding site [chemical binding]; other site 1042878011137 catalytic base [active] 1042878011138 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1042878011139 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878011140 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1042878011141 substrate binding pocket [chemical binding]; other site 1042878011142 dimerization interface [polypeptide binding]; other site 1042878011143 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1042878011144 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1042878011145 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878011146 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042878011147 DNA binding residues [nucleotide binding] 1042878011148 von Willebrand factor; Region: vWF_A; pfam12450 1042878011149 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 1042878011150 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 1042878011151 metal ion-dependent adhesion site (MIDAS); other site 1042878011152 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 1042878011153 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1042878011154 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1042878011155 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1042878011156 putative active site [active] 1042878011157 putative substrate binding site [chemical binding]; other site 1042878011158 ATP binding site [chemical binding]; other site 1042878011159 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1042878011160 catalytic core [active] 1042878011161 enoyl-CoA hydratase; Provisional; Region: PRK07511 1042878011162 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878011163 substrate binding site [chemical binding]; other site 1042878011164 oxyanion hole (OAH) forming residues; other site 1042878011165 trimer interface [polypeptide binding]; other site 1042878011166 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1042878011167 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042878011168 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042878011169 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042878011170 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042878011171 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1042878011172 C-terminal domain interface [polypeptide binding]; other site 1042878011173 GSH binding site (G-site) [chemical binding]; other site 1042878011174 dimer interface [polypeptide binding]; other site 1042878011175 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 1042878011176 putative N-terminal domain interface [polypeptide binding]; other site 1042878011177 putative dimer interface [polypeptide binding]; other site 1042878011178 putative substrate binding pocket (H-site) [chemical binding]; other site 1042878011179 methionine aminotransferase; Validated; Region: PRK09082 1042878011180 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878011181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878011182 homodimer interface [polypeptide binding]; other site 1042878011183 catalytic residue [active] 1042878011184 PIN domain; Region: PIN_3; pfam13470 1042878011185 hypothetical protein; Validated; Region: PRK02101 1042878011186 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1042878011187 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 1042878011188 putative active site [active] 1042878011189 Zn binding site [ion binding]; other site 1042878011190 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 1042878011191 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878011192 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042878011193 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878011194 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 1042878011195 dimerization interface [polypeptide binding]; other site 1042878011196 substrate binding pocket [chemical binding]; other site 1042878011197 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878011198 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878011199 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1042878011200 putative dimerization interface [polypeptide binding]; other site 1042878011201 benzoylformate decarboxylase; Reviewed; Region: PRK07092 1042878011202 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042878011203 PYR/PP interface [polypeptide binding]; other site 1042878011204 dimer interface [polypeptide binding]; other site 1042878011205 TPP binding site [chemical binding]; other site 1042878011206 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042878011207 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 1042878011208 TPP-binding site [chemical binding]; other site 1042878011209 dimer interface [polypeptide binding]; other site 1042878011210 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878011211 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 1042878011212 NAD(P) binding site [chemical binding]; other site 1042878011213 catalytic residues [active] 1042878011214 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878011215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1042878011216 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1042878011217 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1042878011218 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1042878011219 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878011220 Walker A motif; other site 1042878011221 ATP binding site [chemical binding]; other site 1042878011222 Walker B motif; other site 1042878011223 arginine finger; other site 1042878011224 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1042878011225 Cytochrome c; Region: Cytochrom_C; cl11414 1042878011226 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1042878011227 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1042878011228 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1042878011229 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1042878011230 protease TldD; Provisional; Region: tldD; PRK10735 1042878011231 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1042878011232 putative active site [active] 1042878011233 catalytic triad [active] 1042878011234 dimer interface [polypeptide binding]; other site 1042878011235 Predicted membrane protein [Function unknown]; Region: COG3164 1042878011236 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1042878011237 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1042878011238 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1042878011239 metal binding triad; other site 1042878011240 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1042878011241 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1042878011242 metal binding triad; other site 1042878011243 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 1042878011244 active site 1042878011245 catalytic triad [active] 1042878011246 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1042878011247 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1042878011248 Walker A/P-loop; other site 1042878011249 ATP binding site [chemical binding]; other site 1042878011250 Q-loop/lid; other site 1042878011251 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1042878011252 ABC transporter signature motif; other site 1042878011253 Walker B; other site 1042878011254 D-loop; other site 1042878011255 H-loop/switch region; other site 1042878011256 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 1042878011257 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1042878011258 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1042878011259 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1042878011260 ferrochelatase; Reviewed; Region: hemH; PRK00035 1042878011261 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 1042878011262 C-terminal domain interface [polypeptide binding]; other site 1042878011263 active site 1042878011264 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 1042878011265 active site 1042878011266 N-terminal domain interface [polypeptide binding]; other site 1042878011267 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1042878011268 RNA binding surface [nucleotide binding]; other site 1042878011269 GrpE; Region: GrpE; pfam01025 1042878011270 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 1042878011271 dimer interface [polypeptide binding]; other site 1042878011272 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1042878011273 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1042878011274 catalytic residues [active] 1042878011275 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 1042878011276 substrate binding site [chemical binding]; other site 1042878011277 dimerization interface [polypeptide binding]; other site 1042878011278 active site 1042878011279 calcium binding site [ion binding]; other site 1042878011280 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 1042878011281 EamA-like transporter family; Region: EamA; pfam00892 1042878011282 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 1042878011283 putative FMN binding site [chemical binding]; other site 1042878011284 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 1042878011285 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042878011286 Connector enhancer of kinase suppressor of ras; Region: CRIC_ras_sig; pfam10534 1042878011287 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1042878011288 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1042878011289 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878011290 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878011291 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1042878011292 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1042878011293 minor groove reading motif; other site 1042878011294 helix-hairpin-helix signature motif; other site 1042878011295 substrate binding pocket [chemical binding]; other site 1042878011296 active site 1042878011297 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1042878011298 ferredoxin; Provisional; Region: PRK08764 1042878011299 Putative Fe-S cluster; Region: FeS; pfam04060 1042878011300 4Fe-4S binding domain; Region: Fer4; pfam00037 1042878011301 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878011302 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878011303 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1042878011304 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1042878011305 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1042878011306 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878011307 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878011308 homodimer interface [polypeptide binding]; other site 1042878011309 catalytic residue [active] 1042878011310 excinuclease ABC subunit B; Provisional; Region: PRK05298 1042878011311 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1042878011312 ATP binding site [chemical binding]; other site 1042878011313 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042878011314 nucleotide binding region [chemical binding]; other site 1042878011315 ATP-binding site [chemical binding]; other site 1042878011316 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1042878011317 UvrB/uvrC motif; Region: UVR; pfam02151 1042878011318 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1042878011319 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1042878011320 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1042878011321 active site 1042878011322 Site-specific recombinase; Region: SpecificRecomb; pfam10136 1042878011323 Predicted transcriptional regulator [Transcription]; Region: COG1959 1042878011324 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1042878011325 cysteine desulfurase; Provisional; Region: PRK14012 1042878011326 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1042878011327 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878011328 catalytic residue [active] 1042878011329 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1042878011330 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1042878011331 trimerization site [polypeptide binding]; other site 1042878011332 active site 1042878011333 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1042878011334 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 1042878011335 co-chaperone HscB; Provisional; Region: hscB; PRK03578 1042878011336 DnaJ domain; Region: DnaJ; pfam00226 1042878011337 HSP70 interaction site [polypeptide binding]; other site 1042878011338 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1042878011339 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1042878011340 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1042878011341 nucleotide binding site [chemical binding]; other site 1042878011342 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1042878011343 SBD interface [polypeptide binding]; other site 1042878011344 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1042878011345 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878011346 catalytic loop [active] 1042878011347 iron binding site [ion binding]; other site 1042878011348 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 1042878011349 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1042878011350 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 1042878011351 dimer interface [polypeptide binding]; other site 1042878011352 putative anticodon binding site; other site 1042878011353 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1042878011354 motif 1; other site 1042878011355 active site 1042878011356 motif 2; other site 1042878011357 motif 3; other site 1042878011358 short chain dehydrogenase; Provisional; Region: PRK07023 1042878011359 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878011360 NAD(P) binding site [chemical binding]; other site 1042878011361 active site 1042878011362 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1042878011363 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1042878011364 RF-1 domain; Region: RF-1; pfam00472 1042878011365 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1042878011366 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1042878011367 Peptidase family M23; Region: Peptidase_M23; pfam01551 1042878011368 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1042878011369 DHH family; Region: DHH; pfam01368 1042878011370 DHHA1 domain; Region: DHHA1; pfam02272 1042878011371 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 1042878011372 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1042878011373 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1042878011374 FtsX-like permease family; Region: FtsX; pfam02687 1042878011375 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1042878011376 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1042878011377 Walker A/P-loop; other site 1042878011378 ATP binding site [chemical binding]; other site 1042878011379 Q-loop/lid; other site 1042878011380 ABC transporter signature motif; other site 1042878011381 Walker B; other site 1042878011382 D-loop; other site 1042878011383 H-loop/switch region; other site 1042878011384 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1042878011385 active site 1042878011386 Transposase IS200 like; Region: Y1_Tnp; cl00848 1042878011387 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1042878011388 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1042878011389 Probable transposase; Region: OrfB_IS605; pfam01385 1042878011390 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878011391 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1042878011392 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1042878011393 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1042878011394 putative active site [active] 1042878011395 phosphogluconate dehydratase; Validated; Region: PRK09054 1042878011396 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1042878011397 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1042878011398 ATP-binding site [chemical binding]; other site 1042878011399 Gluconate-6-phosphate binding site [chemical binding]; other site 1042878011400 Shikimate kinase; Region: SKI; pfam01202 1042878011401 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1042878011402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1042878011403 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1042878011404 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1042878011405 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1042878011406 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1042878011407 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 1042878011408 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 1042878011409 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042878011410 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1042878011411 catalytic site [active] 1042878011412 CTP synthetase; Validated; Region: pyrG; PRK05380 1042878011413 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 1042878011414 Catalytic site [active] 1042878011415 active site 1042878011416 UTP binding site [chemical binding]; other site 1042878011417 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1042878011418 active site 1042878011419 putative oxyanion hole; other site 1042878011420 catalytic triad [active] 1042878011421 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1042878011422 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1042878011423 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1042878011424 enolase; Provisional; Region: eno; PRK00077 1042878011425 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 1042878011426 dimer interface [polypeptide binding]; other site 1042878011427 metal binding site [ion binding]; metal-binding site 1042878011428 substrate binding pocket [chemical binding]; other site 1042878011429 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1042878011430 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1042878011431 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1042878011432 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 1042878011433 dimerization interface [polypeptide binding]; other site 1042878011434 domain crossover interface; other site 1042878011435 redox-dependent activation switch; other site 1042878011436 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1042878011437 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 1042878011438 trimer interface [polypeptide binding]; other site 1042878011439 putative metal binding site [ion binding]; other site 1042878011440 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1042878011441 dinuclear metal binding motif [ion binding]; other site 1042878011442 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878011443 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878011444 putative substrate translocation pore; other site 1042878011445 Beta-lactamase; Region: Beta-lactamase; pfam00144 1042878011446 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1042878011447 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878011448 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878011449 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 1042878011450 putative dimerization interface [polypeptide binding]; other site 1042878011451 putative effector binding pocket; other site 1042878011452 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1042878011453 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 1042878011454 active site 1042878011455 acyl-activating enzyme (AAE) consensus motif; other site 1042878011456 putative CoA binding site [chemical binding]; other site 1042878011457 AMP binding site [chemical binding]; other site 1042878011458 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042878011459 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042878011460 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1042878011461 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878011462 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1042878011463 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1042878011464 active site 1042878011465 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1042878011466 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1042878011467 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 1042878011468 Peptidase family M50; Region: Peptidase_M50; pfam02163 1042878011469 active site 1042878011470 putative substrate binding region [chemical binding]; other site 1042878011471 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1042878011472 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878011473 S-adenosylmethionine binding site [chemical binding]; other site 1042878011474 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1042878011475 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1042878011476 dimer interface [polypeptide binding]; other site 1042878011477 active site 1042878011478 catalytic residue [active] 1042878011479 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1042878011480 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1042878011481 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1042878011482 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1042878011483 Cupin-like domain; Region: Cupin_8; pfam13621 1042878011484 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1042878011485 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1042878011486 MutS domain I; Region: MutS_I; pfam01624 1042878011487 MutS domain II; Region: MutS_II; pfam05188 1042878011488 MutS domain III; Region: MutS_III; pfam05192 1042878011489 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1042878011490 Walker A/P-loop; other site 1042878011491 ATP binding site [chemical binding]; other site 1042878011492 Q-loop/lid; other site 1042878011493 ABC transporter signature motif; other site 1042878011494 Walker B; other site 1042878011495 D-loop; other site 1042878011496 H-loop/switch region; other site 1042878011497 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878011498 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1042878011499 active site 1042878011500 DNA binding site [nucleotide binding] 1042878011501 Int/Topo IB signature motif; other site 1042878011502 Domain of Unknown Function with PDB structure (DUF3850); Region: DUF3850; pfam12961 1042878011503 Protein of unknown function (DUF4031); Region: DUF4031; pfam13223 1042878011504 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1042878011505 ParB-like nuclease domain; Region: ParB; smart00470 1042878011506 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1042878011507 H-NS histone family; Region: Histone_HNS; pfam00816 1042878011508 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]; Region: COG1936 1042878011509 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1042878011510 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1042878011511 Catalytic site [active] 1042878011512 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 1042878011513 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 1042878011514 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1042878011515 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1042878011516 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 1042878011517 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 1042878011518 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 1042878011519 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 1042878011520 Protein of unknown function (DUF2635); Region: DUF2635; pfam10948 1042878011521 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 1042878011522 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 1042878011523 Phage tail tube protein; Region: Tail_tube; pfam10618 1042878011524 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1042878011525 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 1042878011526 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 1042878011527 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 1042878011528 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1042878011529 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 1042878011530 Phage protein GP46; Region: GP46; pfam07409 1042878011531 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 1042878011532 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 1042878011533 Predicted chitinase [General function prediction only]; Region: COG3179 1042878011534 Phage holin family 2; Region: Phage_holin_2; pfam04550 1042878011535 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1042878011536 active site 1042878011537 DNA binding site [nucleotide binding] 1042878011538 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1042878011539 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1042878011540 Ligand Binding Site [chemical binding]; other site 1042878011541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1042878011542 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1042878011543 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 1042878011544 active site 1042878011545 dimerization interface [polypeptide binding]; other site 1042878011546 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1042878011547 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1042878011548 serine O-acetyltransferase; Region: cysE; TIGR01172 1042878011549 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 1042878011550 trimer interface [polypeptide binding]; other site 1042878011551 active site 1042878011552 substrate binding site [chemical binding]; other site 1042878011553 CoA binding site [chemical binding]; other site 1042878011554 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1042878011555 putative active site [active] 1042878011556 putative metal binding site [ion binding]; other site 1042878011557 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 1042878011558 substrate binding site [chemical binding]; other site 1042878011559 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 1042878011560 substrate binding site [chemical binding]; other site 1042878011561 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1042878011562 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042878011563 binding surface 1042878011564 TPR motif; other site 1042878011565 TPR repeat; Region: TPR_11; pfam13414 1042878011566 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1042878011567 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1042878011568 active site 1042878011569 HIGH motif; other site 1042878011570 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1042878011571 KMSKS motif; other site 1042878011572 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1042878011573 tRNA binding surface [nucleotide binding]; other site 1042878011574 anticodon binding site; other site 1042878011575 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1042878011576 endonuclease III; Region: ENDO3c; smart00478 1042878011577 minor groove reading motif; other site 1042878011578 helix-hairpin-helix signature motif; other site 1042878011579 substrate binding pocket [chemical binding]; other site 1042878011580 active site 1042878011581 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1042878011582 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1042878011583 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 1042878011584 Ligand Binding Site [chemical binding]; other site 1042878011585 TilS substrate binding domain; Region: TilS; pfam09179 1042878011586 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1042878011587 aspartate kinase; Reviewed; Region: PRK06635 1042878011588 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1042878011589 putative nucleotide binding site [chemical binding]; other site 1042878011590 putative catalytic residues [active] 1042878011591 putative Mg ion binding site [ion binding]; other site 1042878011592 putative aspartate binding site [chemical binding]; other site 1042878011593 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 1042878011594 putative allosteric regulatory site; other site 1042878011595 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 1042878011596 CHASE domain; Region: CHASE; pfam03924 1042878011597 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878011598 putative active site [active] 1042878011599 heme pocket [chemical binding]; other site 1042878011600 GAF domain; Region: GAF_2; pfam13185 1042878011601 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042878011602 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878011603 metal binding site [ion binding]; metal-binding site 1042878011604 active site 1042878011605 I-site; other site 1042878011606 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1042878011607 Uncharacterized conserved protein [Function unknown]; Region: COG4278 1042878011608 pyruvate carboxylase; Reviewed; Region: PRK12999 1042878011609 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042878011610 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042878011611 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1042878011612 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1042878011613 active site 1042878011614 catalytic residues [active] 1042878011615 metal binding site [ion binding]; metal-binding site 1042878011616 homodimer binding site [polypeptide binding]; other site 1042878011617 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1042878011618 carboxyltransferase (CT) interaction site; other site 1042878011619 biotinylation site [posttranslational modification]; other site 1042878011620 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1042878011621 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1042878011622 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1042878011623 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1042878011624 citrate-proton symporter; Provisional; Region: PRK15075 1042878011625 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878011626 putative substrate translocation pore; other site 1042878011627 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878011628 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13029 1042878011629 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1042878011630 dimer interface [polypeptide binding]; other site 1042878011631 PYR/PP interface [polypeptide binding]; other site 1042878011632 TPP binding site [chemical binding]; other site 1042878011633 substrate binding site [chemical binding]; other site 1042878011634 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1042878011635 TPP-binding site [chemical binding]; other site 1042878011636 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1042878011637 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1042878011638 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1042878011639 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878011640 DNA-binding site [nucleotide binding]; DNA binding site 1042878011641 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1042878011642 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1042878011643 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1042878011644 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1042878011645 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1042878011646 NAD(P) binding site [chemical binding]; other site 1042878011647 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1042878011648 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1042878011649 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1042878011650 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1042878011651 ligand binding site [chemical binding]; other site 1042878011652 homodimer interface [polypeptide binding]; other site 1042878011653 NAD(P) binding site [chemical binding]; other site 1042878011654 trimer interface B [polypeptide binding]; other site 1042878011655 trimer interface A [polypeptide binding]; other site 1042878011656 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1042878011657 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1042878011658 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1042878011659 Probable transposase; Region: OrfB_IS605; pfam01385 1042878011660 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878011661 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1042878011662 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878011663 classical (c) SDRs; Region: SDR_c; cd05233 1042878011664 NAD(P) binding site [chemical binding]; other site 1042878011665 active site 1042878011666 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1042878011667 Phosphotransferase enzyme family; Region: APH; pfam01636 1042878011668 putative active site [active] 1042878011669 putative substrate binding site [chemical binding]; other site 1042878011670 ATP binding site [chemical binding]; other site 1042878011671 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1042878011672 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1042878011673 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1042878011674 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 1042878011675 Bacterial transcriptional activator domain; Region: BTAD; smart01043 1042878011676 cyclase homology domain; Region: CHD; cd07302 1042878011677 nucleotidyl binding site; other site 1042878011678 metal binding site [ion binding]; metal-binding site 1042878011679 dimer interface [polypeptide binding]; other site 1042878011680 AAA ATPase domain; Region: AAA_16; pfam13191 1042878011681 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1042878011682 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042878011683 binding surface 1042878011684 TPR motif; other site 1042878011685 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1042878011686 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 1042878011687 catalytic residues [active] 1042878011688 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 1042878011689 active site 1042878011690 zinc binding site [ion binding]; other site 1042878011691 GYD domain; Region: GYD; cl01743 1042878011692 Predicted GTPase [General function prediction only]; Region: DRG; COG1163 1042878011693 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1042878011694 G1 box; other site 1042878011695 GTP/Mg2+ binding site [chemical binding]; other site 1042878011696 G2 box; other site 1042878011697 Switch I region; other site 1042878011698 G3 box; other site 1042878011699 Switch II region; other site 1042878011700 G4 box; other site 1042878011701 G5 box; other site 1042878011702 TGS_DRG_C: DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2. DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it...; Region: TGS_DRG_C; cd01666 1042878011703 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 1042878011704 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042878011705 MULE transposase domain; Region: MULE; pfam10551 1042878011706 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1042878011707 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1042878011708 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1042878011709 Probable transposase; Region: OrfB_IS605; pfam01385 1042878011710 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878011711 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1042878011712 Pirin-related protein [General function prediction only]; Region: COG1741 1042878011713 Pirin; Region: Pirin; pfam02678 1042878011714 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1042878011715 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878011716 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878011717 eyelet of channel; other site 1042878011718 trimer interface [polypeptide binding]; other site 1042878011719 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042878011720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878011721 NAD(P) binding site [chemical binding]; other site 1042878011722 active site 1042878011723 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 1042878011724 active site 1042878011725 catalytic site [active] 1042878011726 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1042878011727 active site 1042878011728 catalytic site [active] 1042878011729 lipid-transfer protein; Provisional; Region: PRK08256 1042878011730 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1042878011731 active site 1042878011732 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878011733 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878011734 active site 1042878011735 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878011736 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878011737 DNA binding residues [nucleotide binding] 1042878011738 AAA ATPase domain; Region: AAA_16; pfam13191 1042878011739 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878011740 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878011741 DNA binding residues [nucleotide binding] 1042878011742 dimerization interface [polypeptide binding]; other site 1042878011743 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878011744 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878011745 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878011746 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 1042878011747 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 1042878011748 acyl-activating enzyme (AAE) consensus motif; other site 1042878011749 putative AMP binding site [chemical binding]; other site 1042878011750 putative active site [active] 1042878011751 putative CoA binding site [chemical binding]; other site 1042878011752 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1042878011753 DUF35 OB-fold domain; Region: DUF35; pfam01796 1042878011754 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 1042878011755 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1042878011756 active site 1042878011757 formyl-coenzyme A transferase; Provisional; Region: PRK05398 1042878011758 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878011759 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1042878011760 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042878011761 FAD binding domain; Region: FAD_binding_4; pfam01565 1042878011762 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 1042878011763 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1042878011764 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042878011765 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 1042878011766 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1042878011767 Protein of unknown function (DUF962); Region: DUF962; cl01879 1042878011768 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878011769 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042878011770 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 1042878011771 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1042878011772 homodimer interface [polypeptide binding]; other site 1042878011773 substrate-cofactor binding pocket; other site 1042878011774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878011775 catalytic residue [active] 1042878011776 FOG: CBS domain [General function prediction only]; Region: COG0517 1042878011777 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_12; cd04625 1042878011778 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878011779 putative substrate translocation pore; other site 1042878011780 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1042878011781 putative acyl-acceptor binding pocket; other site 1042878011782 GST_N family, Metaxin subfamily, Metaxin-like proteins; a heterogenous group of proteins, predominantly uncharacterized, with similarity to metaxins and GSTs. Metaxin 1 is a component of a preprotein import complex of the mitochondrial outer membrane. It...; Region: GST_N_Metaxin_like; cd03080 1042878011783 putative C-terminal domain interface [polypeptide binding]; other site 1042878011784 putative GSH binding site [chemical binding]; other site 1042878011785 putative dimer interface [polypeptide binding]; other site 1042878011786 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 1042878011787 putative N-terminal domain interface [polypeptide binding]; other site 1042878011788 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1042878011789 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1042878011790 Tetramer interface [polypeptide binding]; other site 1042878011791 active site 1042878011792 FMN-binding site [chemical binding]; other site 1042878011793 MFS_1 like family; Region: MFS_1_like; pfam12832 1042878011794 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1042878011795 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042878011796 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1042878011797 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042878011798 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878011799 DNA-binding site [nucleotide binding]; DNA binding site 1042878011800 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1042878011801 Flagellar protein YcgR; Region: YcgR_2; pfam12945 1042878011802 PilZ domain; Region: PilZ; pfam07238 1042878011803 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1042878011804 PGAP1-like protein; Region: PGAP1; pfam07819 1042878011805 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1042878011806 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1042878011807 Probable transposase; Region: OrfB_IS605; pfam01385 1042878011808 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878011809 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1042878011810 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 1042878011811 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1042878011812 lipase chaperone; Provisional; Region: PRK01294 1042878011813 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 1042878011814 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1042878011815 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042878011816 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1042878011817 short chain dehydrogenase; Provisional; Region: PRK06949 1042878011818 classical (c) SDRs; Region: SDR_c; cd05233 1042878011819 NAD(P) binding site [chemical binding]; other site 1042878011820 active site 1042878011821 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1042878011822 DctM-like transporters; Region: DctM; pfam06808 1042878011823 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1042878011824 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1042878011825 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1042878011826 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1042878011827 active site 1042878011828 PAS domain; Region: PAS_9; pfam13426 1042878011829 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878011830 putative active site [active] 1042878011831 heme pocket [chemical binding]; other site 1042878011832 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878011833 DNA binding residues [nucleotide binding] 1042878011834 dimerization interface [polypeptide binding]; other site 1042878011835 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1042878011836 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1042878011837 DGC domain; Region: DGC; cl01742 1042878011838 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1042878011839 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1042878011840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878011841 NAD(P) binding site [chemical binding]; other site 1042878011842 active site 1042878011843 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042878011844 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042878011845 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 1042878011846 homotrimer interaction site [polypeptide binding]; other site 1042878011847 putative active site [active] 1042878011848 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1042878011849 HD domain; Region: HD_4; pfam13328 1042878011850 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1042878011851 synthetase active site [active] 1042878011852 NTP binding site [chemical binding]; other site 1042878011853 metal binding site [ion binding]; metal-binding site 1042878011854 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 1042878011855 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1042878011856 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1042878011857 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 1042878011858 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1042878011859 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 1042878011860 active site 1042878011861 dimer interface [polypeptide binding]; other site 1042878011862 motif 1; other site 1042878011863 motif 2; other site 1042878011864 motif 3; other site 1042878011865 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 1042878011866 anticodon binding site; other site 1042878011867 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1042878011868 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1042878011869 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1042878011870 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1042878011871 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1042878011872 23S rRNA binding site [nucleotide binding]; other site 1042878011873 L21 binding site [polypeptide binding]; other site 1042878011874 L13 binding site [polypeptide binding]; other site 1042878011875 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1042878011876 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1042878011877 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 1042878011878 dimer interface [polypeptide binding]; other site 1042878011879 motif 1; other site 1042878011880 active site 1042878011881 motif 2; other site 1042878011882 motif 3; other site 1042878011883 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1042878011884 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 1042878011885 putative tRNA-binding site [nucleotide binding]; other site 1042878011886 B3/4 domain; Region: B3_4; pfam03483 1042878011887 tRNA synthetase B5 domain; Region: B5; smart00874 1042878011888 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 1042878011889 dimer interface [polypeptide binding]; other site 1042878011890 motif 1; other site 1042878011891 motif 3; other site 1042878011892 motif 2; other site 1042878011893 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1042878011894 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1042878011895 IHF - DNA interface [nucleotide binding]; other site 1042878011896 IHF dimer interface [polypeptide binding]; other site 1042878011897 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1042878011898 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1042878011899 DNA binding residues [nucleotide binding] 1042878011900 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878011901 active site 1042878011902 DNA binding site [nucleotide binding] 1042878011903 Int/Topo IB signature motif; other site 1042878011904 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 1042878011905 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 1042878011906 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 1042878011907 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1042878011908 DNA methylase; Region: N6_N4_Mtase; pfam01555 1042878011909 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1042878011910 substrate interaction site [chemical binding]; other site 1042878011911 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1042878011912 Phage Tail Collar Domain; Region: Collar; pfam07484 1042878011913 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 1042878011914 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1042878011915 catalytic residues [active] 1042878011916 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1042878011917 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878011918 sequence-specific DNA binding site [nucleotide binding]; other site 1042878011919 salt bridge; other site 1042878011920 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1042878011921 Uncharacterized conserved protein [Function unknown]; Region: COG3542 1042878011922 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1042878011923 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1042878011924 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1042878011925 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1042878011926 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878011927 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878011928 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878011929 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878011930 dimerization interface [polypeptide binding]; other site 1042878011931 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1042878011932 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 1042878011933 active site 1042878011934 putative substrate binding pocket [chemical binding]; other site 1042878011935 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1042878011936 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1042878011937 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1042878011938 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1042878011939 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1042878011940 MarR family; Region: MarR_2; cl17246 1042878011941 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878011942 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1042878011943 putative catalytic site [active] 1042878011944 putative phosphate binding site [ion binding]; other site 1042878011945 active site 1042878011946 metal binding site A [ion binding]; metal-binding site 1042878011947 DNA binding site [nucleotide binding] 1042878011948 putative AP binding site [nucleotide binding]; other site 1042878011949 putative metal binding site B [ion binding]; other site 1042878011950 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1042878011951 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1042878011952 active site 1042878011953 Zn binding site [ion binding]; other site 1042878011954 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 1042878011955 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1042878011956 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1042878011957 homodimer interface [polypeptide binding]; other site 1042878011958 NADP binding site [chemical binding]; other site 1042878011959 substrate binding site [chemical binding]; other site 1042878011960 Predicted membrane protein [Function unknown]; Region: COG3235 1042878011961 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1042878011962 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878011963 active site 1042878011964 phosphorylation site [posttranslational modification] 1042878011965 intermolecular recognition site; other site 1042878011966 dimerization interface [polypeptide binding]; other site 1042878011967 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878011968 DNA binding residues [nucleotide binding] 1042878011969 dimerization interface [polypeptide binding]; other site 1042878011970 PAS domain S-box; Region: sensory_box; TIGR00229 1042878011971 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878011972 putative active site [active] 1042878011973 heme pocket [chemical binding]; other site 1042878011974 PAS domain S-box; Region: sensory_box; TIGR00229 1042878011975 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878011976 dimer interface [polypeptide binding]; other site 1042878011977 phosphorylation site [posttranslational modification] 1042878011978 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878011979 ATP binding site [chemical binding]; other site 1042878011980 Mg2+ binding site [ion binding]; other site 1042878011981 G-X-G motif; other site 1042878011982 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1042878011983 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 1042878011984 dimer interface [polypeptide binding]; other site 1042878011985 TPP-binding site [chemical binding]; other site 1042878011986 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1042878011987 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1042878011988 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1042878011989 E3 interaction surface; other site 1042878011990 lipoyl attachment site [posttranslational modification]; other site 1042878011991 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1042878011992 E3 interaction surface; other site 1042878011993 lipoyl attachment site [posttranslational modification]; other site 1042878011994 e3 binding domain; Region: E3_binding; pfam02817 1042878011995 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1042878011996 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 1042878011997 active site 1042878011998 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1042878011999 E3 interaction surface; other site 1042878012000 lipoyl attachment site [posttranslational modification]; other site 1042878012001 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1042878012002 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878012003 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878012004 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1042878012005 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1042878012006 Ligand Binding Site [chemical binding]; other site 1042878012007 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 1042878012008 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878012009 FeS/SAM binding site; other site 1042878012010 Phasin protein; Region: Phasin_2; pfam09361 1042878012011 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1042878012012 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 1042878012013 putative active site [active] 1042878012014 Zn binding site [ion binding]; other site 1042878012015 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042878012016 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1042878012017 active site 1042878012018 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1042878012019 putative FMN binding site [chemical binding]; other site 1042878012020 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1042878012021 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1042878012022 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042878012023 FAD binding domain; Region: FAD_binding_4; pfam01565 1042878012024 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042878012025 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878012026 DNA-binding site [nucleotide binding]; DNA binding site 1042878012027 FCD domain; Region: FCD; pfam07729 1042878012028 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878012029 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878012030 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878012031 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1042878012032 Cysteine-rich domain; Region: CCG; pfam02754 1042878012033 Cysteine-rich domain; Region: CCG; pfam02754 1042878012034 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1042878012035 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1042878012036 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1042878012037 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1042878012038 F420-dependent oxidoreductase, G6PDH family; Region: F420_G6P_family; TIGR03557 1042878012039 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1042878012040 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878012041 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 1042878012042 putative dimerization interface [polypeptide binding]; other site 1042878012043 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1042878012044 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1042878012045 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1042878012046 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878012047 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1042878012048 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878012049 Walker A/P-loop; other site 1042878012050 ATP binding site [chemical binding]; other site 1042878012051 Q-loop/lid; other site 1042878012052 ABC transporter signature motif; other site 1042878012053 Walker B; other site 1042878012054 D-loop; other site 1042878012055 H-loop/switch region; other site 1042878012056 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878012057 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1042878012058 TM-ABC transporter signature motif; other site 1042878012059 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1042878012060 zinc binding site [ion binding]; other site 1042878012061 putative ligand binding site [chemical binding]; other site 1042878012062 Predicted periplasmic protein (DUF2092); Region: DUF2092; pfam09865 1042878012063 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1042878012064 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 1042878012065 quinone interaction residues [chemical binding]; other site 1042878012066 active site 1042878012067 catalytic residues [active] 1042878012068 FMN binding site [chemical binding]; other site 1042878012069 substrate binding site [chemical binding]; other site 1042878012070 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1042878012071 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1042878012072 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1042878012073 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1042878012074 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1042878012075 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 1042878012076 nudix motif; other site 1042878012077 RES domain; Region: RES; smart00953 1042878012078 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1042878012079 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 1042878012080 4Fe-4S binding domain; Region: Fer4; pfam00037 1042878012081 4Fe-4S binding domain; Region: Fer4; pfam00037 1042878012082 These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer...; Region: CYPOR_like_FNR; cd06208 1042878012083 dimerization interface [polypeptide binding]; other site 1042878012084 FAD binding pocket [chemical binding]; other site 1042878012085 FAD binding motif [chemical binding]; other site 1042878012086 catalytic residues [active] 1042878012087 NAD binding pocket [chemical binding]; other site 1042878012088 phosphate binding motif [ion binding]; other site 1042878012089 beta-alpha-beta structure motif; other site 1042878012090 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 1042878012091 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 1042878012092 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878012093 substrate binding site [chemical binding]; other site 1042878012094 oxyanion hole (OAH) forming residues; other site 1042878012095 trimer interface [polypeptide binding]; other site 1042878012096 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878012097 non-specific DNA binding site [nucleotide binding]; other site 1042878012098 salt bridge; other site 1042878012099 sequence-specific DNA binding site [nucleotide binding]; other site 1042878012100 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 1042878012101 AAA domain; Region: AAA_18; pfam13238 1042878012102 ADP binding site [chemical binding]; other site 1042878012103 magnesium binding site [ion binding]; other site 1042878012104 putative shikimate binding site; other site 1042878012105 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 1042878012106 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 1042878012107 dimer interface [polypeptide binding]; other site 1042878012108 acyl-activating enzyme (AAE) consensus motif; other site 1042878012109 putative active site [active] 1042878012110 putative AMP binding site [chemical binding]; other site 1042878012111 putative CoA binding site [chemical binding]; other site 1042878012112 chemical substrate binding site [chemical binding]; other site 1042878012113 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878012114 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878012115 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 1042878012116 putative ligand binding site [chemical binding]; other site 1042878012117 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878012118 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878012119 TM-ABC transporter signature motif; other site 1042878012120 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1042878012121 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878012122 TM-ABC transporter signature motif; other site 1042878012123 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878012124 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878012125 Walker A/P-loop; other site 1042878012126 ATP binding site [chemical binding]; other site 1042878012127 Q-loop/lid; other site 1042878012128 ABC transporter signature motif; other site 1042878012129 Walker B; other site 1042878012130 D-loop; other site 1042878012131 H-loop/switch region; other site 1042878012132 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878012133 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878012134 Walker A/P-loop; other site 1042878012135 ATP binding site [chemical binding]; other site 1042878012136 Q-loop/lid; other site 1042878012137 ABC transporter signature motif; other site 1042878012138 Walker B; other site 1042878012139 D-loop; other site 1042878012140 H-loop/switch region; other site 1042878012141 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1042878012142 potassium uptake protein; Region: kup; TIGR00794 1042878012143 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1042878012144 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878012145 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878012146 DNA binding residues [nucleotide binding] 1042878012147 dimerization interface [polypeptide binding]; other site 1042878012148 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1042878012149 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1042878012150 putative dimer interface [polypeptide binding]; other site 1042878012151 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1042878012152 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1042878012153 putative dimer interface [polypeptide binding]; other site 1042878012154 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 1042878012155 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 1042878012156 NAD binding site [chemical binding]; other site 1042878012157 substrate binding site [chemical binding]; other site 1042878012158 active site 1042878012159 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1042878012160 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1042878012161 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1042878012162 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878012163 active site 1042878012164 phosphorylation site [posttranslational modification] 1042878012165 intermolecular recognition site; other site 1042878012166 dimerization interface [polypeptide binding]; other site 1042878012167 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878012168 DNA binding site [nucleotide binding] 1042878012169 sensor protein QseC; Provisional; Region: PRK10337 1042878012170 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878012171 dimer interface [polypeptide binding]; other site 1042878012172 phosphorylation site [posttranslational modification] 1042878012173 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878012174 ATP binding site [chemical binding]; other site 1042878012175 Mg2+ binding site [ion binding]; other site 1042878012176 G-X-G motif; other site 1042878012177 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1042878012178 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1042878012179 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1042878012180 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1042878012181 RNA binding site [nucleotide binding]; other site 1042878012182 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1042878012183 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1042878012184 DEAD_2; Region: DEAD_2; pfam06733 1042878012185 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1042878012186 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1042878012187 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1042878012188 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1042878012189 RNA binding surface [nucleotide binding]; other site 1042878012190 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1042878012191 active site 1042878012192 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1042878012193 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1042878012194 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1042878012195 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1042878012196 putative acyltransferase; Provisional; Region: PRK05790 1042878012197 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878012198 dimer interface [polypeptide binding]; other site 1042878012199 active site 1042878012200 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 1042878012201 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1042878012202 NAD(P) binding site [chemical binding]; other site 1042878012203 homotetramer interface [polypeptide binding]; other site 1042878012204 homodimer interface [polypeptide binding]; other site 1042878012205 active site 1042878012206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 1042878012207 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 1042878012208 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1042878012209 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1042878012210 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 1042878012211 FMN binding site [chemical binding]; other site 1042878012212 active site 1042878012213 catalytic residues [active] 1042878012214 substrate binding site [chemical binding]; other site 1042878012215 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1042878012216 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1042878012217 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878012218 FeS/SAM binding site; other site 1042878012219 TRAM domain; Region: TRAM; cl01282 1042878012220 beta-ketothiolase; Provisional; Region: PRK09051 1042878012221 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878012222 dimer interface [polypeptide binding]; other site 1042878012223 active site 1042878012224 cystathionine beta-lyase; Provisional; Region: PRK07050 1042878012225 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1042878012226 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878012227 catalytic residue [active] 1042878012228 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1042878012229 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1042878012230 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1042878012231 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1042878012232 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 1042878012233 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1042878012234 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042878012235 motif II; other site 1042878012236 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 1042878012237 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1042878012238 metal binding site [ion binding]; metal-binding site 1042878012239 putative dimer interface [polypeptide binding]; other site 1042878012240 acetylornithine deacetylase; Provisional; Region: PRK07522 1042878012241 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1042878012242 metal binding site [ion binding]; metal-binding site 1042878012243 putative dimer interface [polypeptide binding]; other site 1042878012244 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1042878012245 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1042878012246 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1042878012247 ATP binding site [chemical binding]; other site 1042878012248 putative Mg++ binding site [ion binding]; other site 1042878012249 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042878012250 nucleotide binding region [chemical binding]; other site 1042878012251 ATP-binding site [chemical binding]; other site 1042878012252 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1042878012253 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1042878012254 substrate binding site; other site 1042878012255 dimer interface; other site 1042878012256 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 1042878012257 homotrimer interaction site [polypeptide binding]; other site 1042878012258 zinc binding site [ion binding]; other site 1042878012259 CDP-binding sites; other site 1042878012260 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878012261 Coenzyme A binding pocket [chemical binding]; other site 1042878012262 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 1042878012263 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1042878012264 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1042878012265 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1042878012266 dimer interface [polypeptide binding]; other site 1042878012267 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1042878012268 catalytic triad [active] 1042878012269 peroxidatic and resolving cysteines [active] 1042878012270 citrate-proton symporter; Provisional; Region: PRK15075 1042878012271 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878012272 putative substrate translocation pore; other site 1042878012273 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1042878012274 dimerization interface [polypeptide binding]; other site 1042878012275 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878012276 ATP binding site [chemical binding]; other site 1042878012277 Mg2+ binding site [ion binding]; other site 1042878012278 G-X-G motif; other site 1042878012279 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1042878012280 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878012281 active site 1042878012282 phosphorylation site [posttranslational modification] 1042878012283 intermolecular recognition site; other site 1042878012284 dimerization interface [polypeptide binding]; other site 1042878012285 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878012286 DNA binding site [nucleotide binding] 1042878012287 allantoate amidohydrolase; Reviewed; Region: PRK12893 1042878012288 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1042878012289 active site 1042878012290 metal binding site [ion binding]; metal-binding site 1042878012291 dimer interface [polypeptide binding]; other site 1042878012292 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1042878012293 active site lid residues [active] 1042878012294 substrate binding pocket [chemical binding]; other site 1042878012295 catalytic residues [active] 1042878012296 substrate-Mg2+ binding site; other site 1042878012297 aspartate-rich region 1; other site 1042878012298 aspartate-rich region 2; other site 1042878012299 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042878012300 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878012301 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878012302 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1042878012303 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1042878012304 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1042878012305 FMN binding site [chemical binding]; other site 1042878012306 substrate binding site [chemical binding]; other site 1042878012307 putative catalytic residue [active] 1042878012308 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878012309 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878012310 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878012311 active site 1042878012312 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878012313 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 1042878012314 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1042878012315 acyl-activating enzyme (AAE) consensus motif; other site 1042878012316 acyl-activating enzyme (AAE) consensus motif; other site 1042878012317 putative AMP binding site [chemical binding]; other site 1042878012318 putative active site [active] 1042878012319 putative CoA binding site [chemical binding]; other site 1042878012320 short chain dehydrogenase; Provisional; Region: PRK07791 1042878012321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878012322 NAD(P) binding site [chemical binding]; other site 1042878012323 active site 1042878012324 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878012325 lipid-transfer protein; Provisional; Region: PRK08256 1042878012326 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1042878012327 active site 1042878012328 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878012329 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878012330 active site 1042878012331 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1042878012332 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878012333 DNA binding residues [nucleotide binding] 1042878012334 dimerization interface [polypeptide binding]; other site 1042878012335 amidase; Provisional; Region: PRK08310 1042878012336 indole-3-acetamide amidohydrolase; Region: PLN02722 1042878012337 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1042878012338 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878012339 Walker A/P-loop; other site 1042878012340 ATP binding site [chemical binding]; other site 1042878012341 Q-loop/lid; other site 1042878012342 ABC transporter signature motif; other site 1042878012343 Walker B; other site 1042878012344 D-loop; other site 1042878012345 H-loop/switch region; other site 1042878012346 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1042878012347 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1042878012348 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878012349 Walker A/P-loop; other site 1042878012350 ATP binding site [chemical binding]; other site 1042878012351 Q-loop/lid; other site 1042878012352 ABC transporter signature motif; other site 1042878012353 Walker B; other site 1042878012354 D-loop; other site 1042878012355 H-loop/switch region; other site 1042878012356 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1042878012357 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1042878012358 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878012359 dimer interface [polypeptide binding]; other site 1042878012360 conserved gate region; other site 1042878012361 putative PBP binding loops; other site 1042878012362 ABC-ATPase subunit interface; other site 1042878012363 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1042878012364 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878012365 dimer interface [polypeptide binding]; other site 1042878012366 conserved gate region; other site 1042878012367 putative PBP binding loops; other site 1042878012368 ABC-ATPase subunit interface; other site 1042878012369 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_8; cd08495 1042878012370 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1042878012371 allantoate amidohydrolase; Reviewed; Region: PRK12893 1042878012372 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1042878012373 active site 1042878012374 metal binding site [ion binding]; metal-binding site 1042878012375 dimer interface [polypeptide binding]; other site 1042878012376 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878012377 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878012378 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878012379 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1042878012380 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1042878012381 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1042878012382 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042878012383 trigger factor; Provisional; Region: tig; PRK01490 1042878012384 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1042878012385 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1042878012386 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1042878012387 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1042878012388 oligomer interface [polypeptide binding]; other site 1042878012389 active site residues [active] 1042878012390 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1042878012391 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1042878012392 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878012393 Walker A motif; other site 1042878012394 ATP binding site [chemical binding]; other site 1042878012395 Walker B motif; other site 1042878012396 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1042878012397 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1042878012398 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1042878012399 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878012400 Walker A motif; other site 1042878012401 ATP binding site [chemical binding]; other site 1042878012402 Walker B motif; other site 1042878012403 arginine finger; other site 1042878012404 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1042878012405 SurA N-terminal domain; Region: SurA_N_3; cl07813 1042878012406 periplasmic folding chaperone; Provisional; Region: PRK10788 1042878012407 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1042878012408 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 1042878012409 active site 1042878012410 catalytic triad [active] 1042878012411 oxyanion hole [active] 1042878012412 switch loop; other site 1042878012413 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1042878012414 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1042878012415 Walker A/P-loop; other site 1042878012416 ATP binding site [chemical binding]; other site 1042878012417 Q-loop/lid; other site 1042878012418 ABC transporter signature motif; other site 1042878012419 Walker B; other site 1042878012420 D-loop; other site 1042878012421 H-loop/switch region; other site 1042878012422 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1042878012423 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 1042878012424 active site 1042878012425 dimer interface [polypeptide binding]; other site 1042878012426 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 1042878012427 dimer interface [polypeptide binding]; other site 1042878012428 active site 1042878012429 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042878012430 putative carbohydrate kinase; Provisional; Region: PRK10565 1042878012431 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1042878012432 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 1042878012433 putative substrate binding site [chemical binding]; other site 1042878012434 putative ATP binding site [chemical binding]; other site 1042878012435 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1042878012436 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878012437 Transposase IS200 like; Region: Y1_Tnp; cl00848 1042878012438 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1042878012439 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1042878012440 Probable transposase; Region: OrfB_IS605; pfam01385 1042878012441 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878012442 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1042878012443 DctM-like transporters; Region: DctM; pfam06808 1042878012444 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1042878012445 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1042878012446 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1042878012447 amidase; Provisional; Region: PRK07056 1042878012448 Amidase; Region: Amidase; cl11426 1042878012449 MarR family; Region: MarR_2; cl17246 1042878012450 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1042878012451 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 1042878012452 dimerization interface [polypeptide binding]; other site 1042878012453 ATP binding site [chemical binding]; other site 1042878012454 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 1042878012455 dimerization interface [polypeptide binding]; other site 1042878012456 ATP binding site [chemical binding]; other site 1042878012457 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1042878012458 putative active site [active] 1042878012459 catalytic triad [active] 1042878012460 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1042878012461 Creatinine amidohydrolase; Region: Creatininase; cl00618 1042878012462 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1042878012463 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1042878012464 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1042878012465 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1042878012466 intracellular septation protein A; Reviewed; Region: PRK00259 1042878012467 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1042878012468 SelR domain; Region: SelR; pfam01641 1042878012469 hypothetical protein; Validated; Region: PRK00029 1042878012470 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1042878012471 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 1042878012472 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1042878012473 dimer interface [polypeptide binding]; other site 1042878012474 acyl-activating enzyme (AAE) consensus motif; other site 1042878012475 putative active site [active] 1042878012476 AMP binding site [chemical binding]; other site 1042878012477 putative CoA binding site [chemical binding]; other site 1042878012478 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878012479 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 1042878012480 putative ligand binding site [chemical binding]; other site 1042878012481 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878012482 TM-ABC transporter signature motif; other site 1042878012483 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1042878012484 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878012485 TM-ABC transporter signature motif; other site 1042878012486 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878012487 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878012488 Walker A/P-loop; other site 1042878012489 ATP binding site [chemical binding]; other site 1042878012490 Q-loop/lid; other site 1042878012491 ABC transporter signature motif; other site 1042878012492 Walker B; other site 1042878012493 D-loop; other site 1042878012494 H-loop/switch region; other site 1042878012495 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878012496 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878012497 Walker A/P-loop; other site 1042878012498 ATP binding site [chemical binding]; other site 1042878012499 Q-loop/lid; other site 1042878012500 ABC transporter signature motif; other site 1042878012501 Walker B; other site 1042878012502 D-loop; other site 1042878012503 H-loop/switch region; other site 1042878012504 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1042878012505 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1042878012506 N-terminal plug; other site 1042878012507 ligand-binding site [chemical binding]; other site 1042878012508 lysine transporter; Provisional; Region: PRK10836 1042878012509 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878012510 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1042878012511 substrate binding site [chemical binding]; other site 1042878012512 oxyanion hole (OAH) forming residues; other site 1042878012513 trimer interface [polypeptide binding]; other site 1042878012514 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042878012515 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042878012516 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042878012517 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 1042878012518 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878012519 catalytic triad [active] 1042878012520 metal binding site [ion binding]; metal-binding site 1042878012521 conserved cis-peptide bond; other site 1042878012522 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1042878012523 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878012524 dimer interface [polypeptide binding]; other site 1042878012525 active site 1042878012526 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1042878012527 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1042878012528 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878012529 active site 1042878012530 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1042878012531 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 1042878012532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878012533 NAD(P) binding site [chemical binding]; other site 1042878012534 active site 1042878012535 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1042878012536 CoenzymeA binding site [chemical binding]; other site 1042878012537 subunit interaction site [polypeptide binding]; other site 1042878012538 PHB binding site; other site 1042878012539 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1042878012540 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1042878012541 NAD(P) binding site [chemical binding]; other site 1042878012542 substrate binding site [chemical binding]; other site 1042878012543 dimer interface [polypeptide binding]; other site 1042878012544 hypothetical protein; Provisional; Region: PRK06208 1042878012545 intersubunit interface [polypeptide binding]; other site 1042878012546 active site 1042878012547 Zn2+ binding site [ion binding]; other site 1042878012548 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042878012549 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1042878012550 C-terminal domain interface [polypeptide binding]; other site 1042878012551 GSH binding site (G-site) [chemical binding]; other site 1042878012552 dimer interface [polypeptide binding]; other site 1042878012553 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1042878012554 substrate binding pocket (H-site) [chemical binding]; other site 1042878012555 N-terminal domain interface [polypeptide binding]; other site 1042878012556 hypothetical protein; Provisional; Region: PRK06194 1042878012557 classical (c) SDRs; Region: SDR_c; cd05233 1042878012558 NAD(P) binding site [chemical binding]; other site 1042878012559 active site 1042878012560 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042878012561 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878012562 DNA-binding site [nucleotide binding]; DNA binding site 1042878012563 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 1042878012564 substrate binding site [chemical binding]; other site 1042878012565 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1042878012566 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 1042878012567 putative ADP-ribose binding site [chemical binding]; other site 1042878012568 putative active site [active] 1042878012569 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1042878012570 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1042878012571 putative active site [active] 1042878012572 metal binding site [ion binding]; metal-binding site 1042878012573 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1042878012574 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1042878012575 substrate binding pocket [chemical binding]; other site 1042878012576 Tripartite tricarboxylate transporter family receptor; Region: TctC; pfam03401 1042878012577 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1042878012578 active site 1042878012579 EF hand; Region: EF_hand_3; pfam13202 1042878012580 EF-hand domain pair; Region: EF_hand_5; pfam13499 1042878012581 Ca2+ binding site [ion binding]; other site 1042878012582 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1042878012583 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1042878012584 putative NAD(P) binding site [chemical binding]; other site 1042878012585 active site 1042878012586 putative substrate binding site [chemical binding]; other site 1042878012587 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1042878012588 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1042878012589 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878012590 putative substrate translocation pore; other site 1042878012591 putative aldolase; Validated; Region: PRK08130 1042878012592 intersubunit interface [polypeptide binding]; other site 1042878012593 active site 1042878012594 Zn2+ binding site [ion binding]; other site 1042878012595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1042878012596 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1042878012597 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1042878012598 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042878012599 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878012600 DNA-binding site [nucleotide binding]; DNA binding site 1042878012601 FCD domain; Region: FCD; pfam07729 1042878012602 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1042878012603 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1042878012604 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878012605 Coenzyme A binding pocket [chemical binding]; other site 1042878012606 Uncharacterized conserved protein [Function unknown]; Region: COG3332 1042878012607 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 1042878012608 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1042878012609 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1042878012610 YceG-like family; Region: YceG; pfam02618 1042878012611 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1042878012612 dimerization interface [polypeptide binding]; other site 1042878012613 thymidylate kinase; Validated; Region: tmk; PRK00698 1042878012614 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 1042878012615 TMP-binding site; other site 1042878012616 ATP-binding site [chemical binding]; other site 1042878012617 DNA polymerase III subunit delta'; Validated; Region: PRK06964 1042878012618 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1042878012619 PilZ domain; Region: PilZ; cl01260 1042878012620 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1042878012621 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878012622 Coenzyme A binding pocket [chemical binding]; other site 1042878012623 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1042878012624 active site 1042878012625 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1042878012626 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1042878012627 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1042878012628 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1042878012629 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 1042878012630 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1042878012631 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1042878012632 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042878012633 LysR family transcriptional regulator; Provisional; Region: PRK14997 1042878012634 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878012635 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 1042878012636 putative effector binding pocket; other site 1042878012637 putative dimerization interface [polypeptide binding]; other site 1042878012638 DoxX; Region: DoxX; pfam07681 1042878012639 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1042878012640 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1042878012641 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1042878012642 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1042878012643 Cupin domain; Region: Cupin_2; cl17218 1042878012644 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 1042878012645 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1042878012646 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1042878012647 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 1042878012648 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1042878012649 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1042878012650 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1042878012651 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1042878012652 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878012653 Walker A/P-loop; other site 1042878012654 ATP binding site [chemical binding]; other site 1042878012655 Q-loop/lid; other site 1042878012656 ABC transporter signature motif; other site 1042878012657 Walker B; other site 1042878012658 D-loop; other site 1042878012659 H-loop/switch region; other site 1042878012660 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1042878012661 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1042878012662 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878012663 Walker A/P-loop; other site 1042878012664 ATP binding site [chemical binding]; other site 1042878012665 Q-loop/lid; other site 1042878012666 ABC transporter signature motif; other site 1042878012667 Walker B; other site 1042878012668 D-loop; other site 1042878012669 H-loop/switch region; other site 1042878012670 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1042878012671 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1042878012672 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878012673 dimer interface [polypeptide binding]; other site 1042878012674 conserved gate region; other site 1042878012675 putative PBP binding loops; other site 1042878012676 ABC-ATPase subunit interface; other site 1042878012677 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1042878012678 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878012679 dimer interface [polypeptide binding]; other site 1042878012680 conserved gate region; other site 1042878012681 putative PBP binding loops; other site 1042878012682 ABC-ATPase subunit interface; other site 1042878012683 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1042878012684 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1042878012685 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878012686 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878012687 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878012688 dimerization interface [polypeptide binding]; other site 1042878012689 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1042878012690 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878012691 dimer interface [polypeptide binding]; other site 1042878012692 conserved gate region; other site 1042878012693 putative PBP binding loops; other site 1042878012694 ABC-ATPase subunit interface; other site 1042878012695 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878012696 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878012697 DNA-binding site [nucleotide binding]; DNA binding site 1042878012698 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878012699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878012700 homodimer interface [polypeptide binding]; other site 1042878012701 catalytic residue [active] 1042878012702 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1042878012703 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042878012704 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1042878012705 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1042878012706 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1042878012707 putative acyl-acceptor binding pocket; other site 1042878012708 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1042878012709 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1042878012710 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042878012711 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878012712 putative DNA binding site [nucleotide binding]; other site 1042878012713 putative Zn2+ binding site [ion binding]; other site 1042878012714 AsnC family; Region: AsnC_trans_reg; pfam01037 1042878012715 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1042878012716 Uncharacterized conserved protein [Function unknown]; Region: COG1615 1042878012717 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 1042878012718 acetyl-CoA synthetase; Provisional; Region: PRK00174 1042878012719 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878012720 acyl-activating enzyme (AAE) consensus motif; other site 1042878012721 AMP binding site [chemical binding]; other site 1042878012722 active site 1042878012723 CoA binding site [chemical binding]; other site 1042878012724 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1042878012725 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 1042878012726 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1042878012727 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1042878012728 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 1042878012729 HSP70 interaction site [polypeptide binding]; other site 1042878012730 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878012731 S-adenosylmethionine binding site [chemical binding]; other site 1042878012732 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1042878012733 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878012734 S-adenosylmethionine binding site [chemical binding]; other site 1042878012735 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 1042878012736 nucleotide binding site [chemical binding]; other site 1042878012737 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1042878012738 SBD interface [polypeptide binding]; other site 1042878012739 DNA-K related protein; Region: DUF3731; pfam12531 1042878012740 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 1042878012741 nucleotide binding site [chemical binding]; other site 1042878012742 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1042878012743 SBD interface [polypeptide binding]; other site 1042878012744 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 1042878012745 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1042878012746 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1042878012747 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1042878012748 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1042878012749 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878012750 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1042878012751 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042878012752 DNA binding residues [nucleotide binding] 1042878012753 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 1042878012754 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1042878012755 putative active site [active] 1042878012756 putative dimer interface [polypeptide binding]; other site 1042878012757 benzoate transport; Region: 2A0115; TIGR00895 1042878012758 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878012759 putative substrate translocation pore; other site 1042878012760 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878012761 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1042878012762 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878012763 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878012764 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 1042878012765 [2Fe-2S] cluster binding site [ion binding]; other site 1042878012766 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 1042878012767 inter-subunit interface; other site 1042878012768 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042878012769 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1042878012770 iron-sulfur cluster [ion binding]; other site 1042878012771 [2Fe-2S] cluster binding site [ion binding]; other site 1042878012772 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 1042878012773 putative alpha subunit interface [polypeptide binding]; other site 1042878012774 putative active site [active] 1042878012775 putative substrate binding site [chemical binding]; other site 1042878012776 Fe binding site [ion binding]; other site 1042878012777 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878012778 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878012779 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 1042878012780 substrate binding pocket [chemical binding]; other site 1042878012781 dimerization interface [polypeptide binding]; other site 1042878012782 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 1042878012783 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878012784 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878012785 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 1042878012786 putative dimerization interface [polypeptide binding]; other site 1042878012787 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1042878012788 Coenzyme A transferase; Region: CoA_trans; cl17247 1042878012789 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 1042878012790 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 1042878012791 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 1042878012792 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 1042878012793 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 1042878012794 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 1042878012795 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1042878012796 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 1042878012797 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1042878012798 substrate binding site [chemical binding]; other site 1042878012799 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 1042878012800 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1042878012801 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1042878012802 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1042878012803 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 1042878012804 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 1042878012805 Subunit I/III interface [polypeptide binding]; other site 1042878012806 Subunit III/IV interface [polypeptide binding]; other site 1042878012807 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1042878012808 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1042878012809 D-pathway; other site 1042878012810 Putative ubiquinol binding site [chemical binding]; other site 1042878012811 Low-spin heme (heme b) binding site [chemical binding]; other site 1042878012812 Putative water exit pathway; other site 1042878012813 Binuclear center (heme o3/CuB) [ion binding]; other site 1042878012814 K-pathway; other site 1042878012815 Putative proton exit pathway; other site 1042878012816 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1042878012817 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1042878012818 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1042878012819 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878012820 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878012821 DNA-binding site [nucleotide binding]; DNA binding site 1042878012822 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878012823 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878012824 homodimer interface [polypeptide binding]; other site 1042878012825 catalytic residue [active] 1042878012826 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042878012827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878012828 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878012829 dimerization interface [polypeptide binding]; other site 1042878012830 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878012831 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878012832 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878012833 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878012834 homodimer interface [polypeptide binding]; other site 1042878012835 catalytic residue [active] 1042878012836 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042878012837 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1042878012838 putative C-terminal domain interface [polypeptide binding]; other site 1042878012839 putative GSH binding site (G-site) [chemical binding]; other site 1042878012840 putative dimer interface [polypeptide binding]; other site 1042878012841 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1042878012842 dimer interface [polypeptide binding]; other site 1042878012843 N-terminal domain interface [polypeptide binding]; other site 1042878012844 putative substrate binding pocket (H-site) [chemical binding]; other site 1042878012845 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878012846 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1042878012847 active sites [active] 1042878012848 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 1042878012849 tetramer interface [polypeptide binding]; other site 1042878012850 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1042878012851 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878012852 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 1042878012853 putative dimerization interface [polypeptide binding]; other site 1042878012854 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1042878012855 dimer interface [polypeptide binding]; other site 1042878012856 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1042878012857 DNA polymerase II; Reviewed; Region: PRK05762 1042878012858 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1042878012859 active site 1042878012860 catalytic site [active] 1042878012861 substrate binding site [chemical binding]; other site 1042878012862 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 1042878012863 active site 1042878012864 metal-binding site 1042878012865 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1042878012866 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878012867 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878012868 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1042878012869 Protein export membrane protein; Region: SecD_SecF; cl14618 1042878012870 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042878012871 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1042878012872 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042878012873 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878012874 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878012875 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1042878012876 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042878012877 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1042878012878 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042878012879 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1042878012880 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1042878012881 Amidase; Region: Amidase; pfam01425 1042878012882 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878012883 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878012884 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878012885 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_5; cd08426 1042878012886 putative dimerization interface [polypeptide binding]; other site 1042878012887 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042878012888 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042878012889 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042878012890 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 1042878012891 ATP adenylyltransferase; Region: ATP_transf; pfam09830 1042878012892 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 1042878012893 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878012894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878012895 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878012896 dimerization interface [polypeptide binding]; other site 1042878012897 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878012898 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1042878012899 classical (c) SDRs; Region: SDR_c; cd05233 1042878012900 NAD(P) binding site [chemical binding]; other site 1042878012901 active site 1042878012902 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1042878012903 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1042878012904 putative ligand binding site [chemical binding]; other site 1042878012905 NAD binding site [chemical binding]; other site 1042878012906 catalytic site [active] 1042878012907 Helix-turn-helix domain; Region: HTH_17; pfam12728 1042878012908 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 1042878012909 dimer interface [polypeptide binding]; other site 1042878012910 active site 1042878012911 coenzyme A binding site [chemical binding]; other site 1042878012912 citrylCoA binding site [chemical binding]; other site 1042878012913 Citrate synthase; Region: Citrate_synt; pfam00285 1042878012914 oxalacetate/citrate binding site [chemical binding]; other site 1042878012915 catalytic triad [active] 1042878012916 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1042878012917 Cytochrome c; Region: Cytochrom_C; cl11414 1042878012918 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1042878012919 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1042878012920 Trp docking motif [polypeptide binding]; other site 1042878012921 active site 1042878012922 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1042878012923 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1042878012924 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1042878012925 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1042878012926 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1042878012927 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1042878012928 structural tetrad; other site 1042878012929 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1042878012930 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1042878012931 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1042878012932 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1042878012933 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878012934 MarR family; Region: MarR; pfam01047 1042878012935 OsmC-like protein; Region: OsmC; cl00767 1042878012936 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878012937 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878012938 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042878012939 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1042878012940 FMN binding site [chemical binding]; other site 1042878012941 active site 1042878012942 substrate binding site [chemical binding]; other site 1042878012943 catalytic residue [active] 1042878012944 Peptidase family M48; Region: Peptidase_M48; cl12018 1042878012945 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 1042878012946 Part of AAA domain; Region: AAA_19; pfam13245 1042878012947 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1042878012948 AAA domain; Region: AAA_12; pfam13087 1042878012949 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 1042878012950 TolA protein; Region: tolA_full; TIGR02794 1042878012951 TonB C terminal; Region: TonB_2; pfam13103 1042878012952 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1042878012953 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878012954 active site 1042878012955 metal binding site [ion binding]; metal-binding site 1042878012956 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1042878012957 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1042878012958 Double zinc ribbon; Region: DZR; pfam12773 1042878012959 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1042878012960 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1042878012961 cyclase homology domain; Region: CHD; cd07302 1042878012962 nucleotidyl binding site; other site 1042878012963 metal binding site [ion binding]; metal-binding site 1042878012964 dimer interface [polypeptide binding]; other site 1042878012965 AAA ATPase domain; Region: AAA_16; pfam13191 1042878012966 Predicted ATPase [General function prediction only]; Region: COG3899 1042878012967 Predicted ATPase [General function prediction only]; Region: COG3903 1042878012968 tartrate dehydrogenase; Region: TTC; TIGR02089 1042878012969 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1042878012970 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 1042878012971 tetramer interface [polypeptide binding]; other site 1042878012972 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878012973 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042878012974 NAD(P) binding site [chemical binding]; other site 1042878012975 catalytic residues [active] 1042878012976 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1042878012977 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042878012978 active site 1042878012979 motif II; other site 1042878012980 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042878012981 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042878012982 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1042878012983 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 1042878012984 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1042878012985 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878012986 Walker A/P-loop; other site 1042878012987 ATP binding site [chemical binding]; other site 1042878012988 Q-loop/lid; other site 1042878012989 ABC transporter signature motif; other site 1042878012990 Walker B; other site 1042878012991 D-loop; other site 1042878012992 H-loop/switch region; other site 1042878012993 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878012994 Walker A/P-loop; other site 1042878012995 ATP binding site [chemical binding]; other site 1042878012996 Q-loop/lid; other site 1042878012997 ABC transporter signature motif; other site 1042878012998 Walker B; other site 1042878012999 D-loop; other site 1042878013000 H-loop/switch region; other site 1042878013001 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1042878013002 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878013003 dimer interface [polypeptide binding]; other site 1042878013004 conserved gate region; other site 1042878013005 ABC-ATPase subunit interface; other site 1042878013006 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1042878013007 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878013008 dimer interface [polypeptide binding]; other site 1042878013009 conserved gate region; other site 1042878013010 putative PBP binding loops; other site 1042878013011 ABC-ATPase subunit interface; other site 1042878013012 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878013013 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878013014 active site 1042878013015 phosphorylation site [posttranslational modification] 1042878013016 intermolecular recognition site; other site 1042878013017 dimerization interface [polypeptide binding]; other site 1042878013018 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878013019 DNA binding residues [nucleotide binding] 1042878013020 dimerization interface [polypeptide binding]; other site 1042878013021 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878013022 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878013023 trimer interface [polypeptide binding]; other site 1042878013024 eyelet of channel; other site 1042878013025 acetyl-CoA synthetase; Provisional; Region: PRK00174 1042878013026 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1042878013027 active site 1042878013028 CoA binding site [chemical binding]; other site 1042878013029 acyl-activating enzyme (AAE) consensus motif; other site 1042878013030 AMP binding site [chemical binding]; other site 1042878013031 acetate binding site [chemical binding]; other site 1042878013032 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1042878013033 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878013034 Coenzyme A binding pocket [chemical binding]; other site 1042878013035 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1042878013036 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1042878013037 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042878013038 motif II; other site 1042878013039 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1042878013040 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042878013041 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042878013042 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1042878013043 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042878013044 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1042878013045 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1042878013046 hypothetical protein; Provisional; Region: PRK05965 1042878013047 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1042878013048 inhibitor-cofactor binding pocket; inhibition site 1042878013049 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878013050 catalytic residue [active] 1042878013051 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1042878013052 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878013053 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1042878013054 Coenzyme A binding pocket [chemical binding]; other site 1042878013055 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1042878013056 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 1042878013057 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042878013058 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878013059 substrate binding pocket [chemical binding]; other site 1042878013060 membrane-bound complex binding site; other site 1042878013061 hinge residues; other site 1042878013062 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1042878013063 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1042878013064 inhibitor-cofactor binding pocket; inhibition site 1042878013065 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878013066 catalytic residue [active] 1042878013067 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042878013068 FAD binding domain; Region: FAD_binding_4; pfam01565 1042878013069 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1042878013070 succinic semialdehyde dehydrogenase; Region: PLN02278 1042878013071 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1042878013072 tetramerization interface [polypeptide binding]; other site 1042878013073 NAD(P) binding site [chemical binding]; other site 1042878013074 catalytic residues [active] 1042878013075 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1042878013076 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878013077 Walker A/P-loop; other site 1042878013078 ATP binding site [chemical binding]; other site 1042878013079 Q-loop/lid; other site 1042878013080 ABC transporter signature motif; other site 1042878013081 Walker B; other site 1042878013082 D-loop; other site 1042878013083 H-loop/switch region; other site 1042878013084 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878013085 Walker A/P-loop; other site 1042878013086 ATP binding site [chemical binding]; other site 1042878013087 Q-loop/lid; other site 1042878013088 ABC transporter signature motif; other site 1042878013089 Walker B; other site 1042878013090 D-loop; other site 1042878013091 H-loop/switch region; other site 1042878013092 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1042878013093 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878013094 dimer interface [polypeptide binding]; other site 1042878013095 conserved gate region; other site 1042878013096 ABC-ATPase subunit interface; other site 1042878013097 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1042878013098 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878013099 dimer interface [polypeptide binding]; other site 1042878013100 conserved gate region; other site 1042878013101 putative PBP binding loops; other site 1042878013102 ABC-ATPase subunit interface; other site 1042878013103 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1042878013104 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1042878013105 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1042878013106 putative ligand binding site [chemical binding]; other site 1042878013107 NAD binding site [chemical binding]; other site 1042878013108 dimerization interface [polypeptide binding]; other site 1042878013109 catalytic site [active] 1042878013110 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042878013111 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878013112 putative DNA binding site [nucleotide binding]; other site 1042878013113 putative Zn2+ binding site [ion binding]; other site 1042878013114 AsnC family; Region: AsnC_trans_reg; pfam01037 1042878013115 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042878013116 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878013117 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1042878013118 benzoate transport; Region: 2A0115; TIGR00895 1042878013119 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878013120 putative substrate translocation pore; other site 1042878013121 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878013122 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878013123 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878013124 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042878013125 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1042878013126 [2Fe-2S] cluster binding site [ion binding]; other site 1042878013127 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1042878013128 alpha subunit interface [polypeptide binding]; other site 1042878013129 active site 1042878013130 substrate binding site [chemical binding]; other site 1042878013131 Fe binding site [ion binding]; other site 1042878013132 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 1042878013133 Cupin domain; Region: Cupin_2; cl17218 1042878013134 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1042878013135 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878013136 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878013137 SnoaL-like domain; Region: SnoaL_4; pfam13577 1042878013138 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 1042878013139 [2Fe-2S] cluster binding site [ion binding]; other site 1042878013140 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1042878013141 active site 1042878013142 homotetramer interface [polypeptide binding]; other site 1042878013143 homodimer interface [polypeptide binding]; other site 1042878013144 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1042878013145 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1042878013146 active site 1042878013147 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878013148 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878013149 trimer interface [polypeptide binding]; other site 1042878013150 eyelet of channel; other site 1042878013151 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 1042878013152 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1042878013153 C-terminal domain interface [polypeptide binding]; other site 1042878013154 GSH binding site (G-site) [chemical binding]; other site 1042878013155 putative dimer interface [polypeptide binding]; other site 1042878013156 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1042878013157 N-terminal domain interface [polypeptide binding]; other site 1042878013158 dimer interface [polypeptide binding]; other site 1042878013159 substrate binding pocket (H-site) [chemical binding]; other site 1042878013160 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878013161 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878013162 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878013163 dimerization interface [polypeptide binding]; other site 1042878013164 citrate-proton symporter; Provisional; Region: PRK15075 1042878013165 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878013166 putative substrate translocation pore; other site 1042878013167 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 1042878013168 amidohydrolase; Region: amidohydrolases; TIGR01891 1042878013169 putative metal binding site [ion binding]; other site 1042878013170 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 1042878013171 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1042878013172 putative metal binding site [ion binding]; other site 1042878013173 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878013174 trimer interface [polypeptide binding]; other site 1042878013175 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878013176 eyelet of channel; other site 1042878013177 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 1042878013178 amidohydrolase; Region: amidohydrolases; TIGR01891 1042878013179 putative metal binding site [ion binding]; other site 1042878013180 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1042878013181 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 1042878013182 FAD binding pocket [chemical binding]; other site 1042878013183 FAD binding motif [chemical binding]; other site 1042878013184 phosphate binding motif [ion binding]; other site 1042878013185 beta-alpha-beta structure motif; other site 1042878013186 NAD binding pocket [chemical binding]; other site 1042878013187 Iron coordination center [ion binding]; other site 1042878013188 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1042878013189 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 1042878013190 heterodimer interface [polypeptide binding]; other site 1042878013191 active site 1042878013192 FMN binding site [chemical binding]; other site 1042878013193 homodimer interface [polypeptide binding]; other site 1042878013194 substrate binding site [chemical binding]; other site 1042878013195 MarR family; Region: MarR_2; cl17246 1042878013196 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878013197 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1042878013198 Amidase; Region: Amidase; pfam01425 1042878013199 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 1042878013200 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 1042878013201 putative metal binding site [ion binding]; other site 1042878013202 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878013203 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1042878013204 catalytic loop [active] 1042878013205 iron binding site [ion binding]; other site 1042878013206 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 1042878013207 FAD binding pocket [chemical binding]; other site 1042878013208 FAD binding motif [chemical binding]; other site 1042878013209 phosphate binding motif [ion binding]; other site 1042878013210 beta-alpha-beta structure motif; other site 1042878013211 NAD binding pocket [chemical binding]; other site 1042878013212 Rieske non-heme iron oxygenase (RO) family, 2-Oxoquinoline 8-monooxygenase (OMO) and Carbazole 1,9a-dioxygenase (CARDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating...; Region: Rieske_RO_Alpha_OMO_CARDO; cd03548 1042878013213 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042878013214 iron-sulfur cluster [ion binding]; other site 1042878013215 alpha subunit interaction site [polypeptide binding]; other site 1042878013216 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 1042878013217 alpha subunit interface [polypeptide binding]; other site 1042878013218 active site 1042878013219 substrate binding site [chemical binding]; other site 1042878013220 Fe binding site [ion binding]; other site 1042878013221 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878013222 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878013223 trimer interface [polypeptide binding]; other site 1042878013224 eyelet of channel; other site 1042878013225 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1042878013226 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1042878013227 NAD(P) binding site [chemical binding]; other site 1042878013228 Cupin domain; Region: Cupin_2; pfam07883 1042878013229 Hemerythrin; Region: Hemerythrin; cd12107 1042878013230 Fe binding site [ion binding]; other site 1042878013231 Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), which catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate; Region: MhpB_like; cd07365 1042878013232 putative active site [active] 1042878013233 Fe(II) binding site [ion binding]; other site 1042878013234 putative dimer interface [polypeptide binding]; other site 1042878013235 putative tetramer interface [polypeptide binding]; other site 1042878013236 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1042878013237 acetaldehyde dehydrogenase; Validated; Region: PRK08300 1042878013238 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1042878013239 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 1042878013240 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 1042878013241 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 1042878013242 active site 1042878013243 catalytic residues [active] 1042878013244 metal binding site [ion binding]; metal-binding site 1042878013245 DmpG-like communication domain; Region: DmpG_comm; pfam07836 1042878013246 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 1042878013247 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1042878013248 classical (c) SDRs; Region: SDR_c; cd05233 1042878013249 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 1042878013250 NAD(P) binding site [chemical binding]; other site 1042878013251 active site 1042878013252 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1042878013253 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878013254 catalytic residue [active] 1042878013255 Helix-turn-helix domain; Region: HTH_37; pfam13744 1042878013256 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042878013257 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878013258 substrate binding site [chemical binding]; other site 1042878013259 oxyanion hole (OAH) forming residues; other site 1042878013260 trimer interface [polypeptide binding]; other site 1042878013261 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878013262 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878013263 Sulfatase; Region: Sulfatase; cl17466 1042878013264 choline-sulfatase; Region: chol_sulfatase; TIGR03417 1042878013265 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 1042878013266 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878013267 Magnetospirillum NAD(P)+-dependent aldehyde dehydrogenase MSR-1-like; Region: ALDH_MGR_2402; cd07108 1042878013268 NAD(P) binding site [chemical binding]; other site 1042878013269 catalytic residues [active] 1042878013270 catalytic residues [active] 1042878013271 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1042878013272 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1042878013273 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878013274 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878013275 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878013276 DNA-binding site [nucleotide binding]; DNA binding site 1042878013277 FCD domain; Region: FCD; pfam07729 1042878013278 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1042878013279 intersubunit interface [polypeptide binding]; other site 1042878013280 active site 1042878013281 Zn2+ binding site [ion binding]; other site 1042878013282 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878013283 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1042878013284 Amidase; Region: Amidase; pfam01425 1042878013285 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878013286 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878013287 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042878013288 dimerization interface [polypeptide binding]; other site 1042878013289 substrate binding pocket [chemical binding]; other site 1042878013290 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042878013291 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042878013292 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042878013293 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042878013294 Walker A/P-loop; other site 1042878013295 ATP binding site [chemical binding]; other site 1042878013296 Q-loop/lid; other site 1042878013297 ABC transporter signature motif; other site 1042878013298 Walker B; other site 1042878013299 D-loop; other site 1042878013300 H-loop/switch region; other site 1042878013301 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042878013302 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878013303 dimer interface [polypeptide binding]; other site 1042878013304 conserved gate region; other site 1042878013305 putative PBP binding loops; other site 1042878013306 ABC-ATPase subunit interface; other site 1042878013307 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878013308 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042878013309 substrate binding pocket [chemical binding]; other site 1042878013310 membrane-bound complex binding site; other site 1042878013311 hinge residues; other site 1042878013312 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878013313 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878013314 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878013315 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1042878013316 Double zinc ribbon; Region: DZR; pfam12773 1042878013317 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1042878013318 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1042878013319 cyclase homology domain; Region: CHD; cd07302 1042878013320 nucleotidyl binding site; other site 1042878013321 metal binding site [ion binding]; metal-binding site 1042878013322 dimer interface [polypeptide binding]; other site 1042878013323 AAA ATPase domain; Region: AAA_16; pfam13191 1042878013324 Predicted ATPase [General function prediction only]; Region: COG3899 1042878013325 Predicted ATPase [General function prediction only]; Region: COG3903 1042878013326 sequence-specific DNA binding site [nucleotide binding]; other site 1042878013327 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1042878013328 salt bridge; other site 1042878013329 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 1042878013330 putative FMN binding site [chemical binding]; other site 1042878013331 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1042878013332 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 1042878013333 Int/Topo IB signature motif; other site 1042878013334 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1042878013335 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 1042878013336 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1042878013337 RNA polymerase sigma factor; Provisional; Region: PRK12533 1042878013338 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878013339 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1042878013340 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1042878013341 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1042878013342 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1042878013343 Probable transposase; Region: OrfB_IS605; pfam01385 1042878013344 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878013345 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1042878013346 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878013347 catalytic loop [active] 1042878013348 iron binding site [ion binding]; other site 1042878013349 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1042878013350 cyclase homology domain; Region: CHD; cd07302 1042878013351 nucleotidyl binding site; other site 1042878013352 metal binding site [ion binding]; metal-binding site 1042878013353 dimer interface [polypeptide binding]; other site 1042878013354 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1042878013355 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1042878013356 active site 1042878013357 metal binding site [ion binding]; metal-binding site 1042878013358 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1042878013359 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1042878013360 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 1042878013361 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 1042878013362 TrkA-C domain; Region: TrkA_C; pfam02080 1042878013363 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1042878013364 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1042878013365 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1042878013366 NADP binding site [chemical binding]; other site 1042878013367 dimer interface [polypeptide binding]; other site 1042878013368 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1042878013369 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1042878013370 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1042878013371 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878013372 acyl-activating enzyme (AAE) consensus motif; other site 1042878013373 AMP binding site [chemical binding]; other site 1042878013374 active site 1042878013375 CoA binding site [chemical binding]; other site 1042878013376 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878013377 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1042878013378 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1042878013379 catalytic residues [active] 1042878013380 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1042878013381 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1042878013382 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042878013383 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878013384 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878013385 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042878013386 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878013387 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878013388 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1042878013389 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1042878013390 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878013391 active site 1042878013392 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1042878013393 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 1042878013394 putative active site [active] 1042878013395 putative catalytic site [active] 1042878013396 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 1042878013397 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1042878013398 Phasin protein; Region: Phasin_2; pfam09361 1042878013399 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 1042878013400 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1042878013401 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878013402 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878013403 trimer interface [polypeptide binding]; other site 1042878013404 eyelet of channel; other site 1042878013405 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1042878013406 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878013407 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878013408 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878013409 putative substrate translocation pore; other site 1042878013410 ThiF family; Region: ThiF; pfam00899 1042878013411 ATP binding site [chemical binding]; other site 1042878013412 substrate interface [chemical binding]; other site 1042878013413 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1042878013414 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1042878013415 dimer interface [polypeptide binding]; other site 1042878013416 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1042878013417 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 1042878013418 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1042878013419 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878013420 S-adenosylmethionine binding site [chemical binding]; other site 1042878013421 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1042878013422 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1042878013423 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1042878013424 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1042878013425 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1042878013426 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1042878013427 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1042878013428 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1042878013429 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 1042878013430 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1042878013431 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1042878013432 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1042878013433 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1042878013434 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1042878013435 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1042878013436 Amidase; Region: Amidase; pfam01425 1042878013437 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878013438 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1042878013439 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 1042878013440 Trp docking motif [polypeptide binding]; other site 1042878013441 cytochrome domain interface [polypeptide binding]; other site 1042878013442 active site 1042878013443 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1042878013444 enoyl-CoA hydratase; Provisional; Region: PRK09245 1042878013445 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878013446 substrate binding site [chemical binding]; other site 1042878013447 oxyanion hole (OAH) forming residues; other site 1042878013448 trimer interface [polypeptide binding]; other site 1042878013449 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878013450 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878013451 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 1042878013452 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878013453 dimer interface [polypeptide binding]; other site 1042878013454 active site 1042878013455 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878013456 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878013457 NAD(P) binding site [chemical binding]; other site 1042878013458 active site 1042878013459 enoyl-CoA hydratase; Provisional; Region: PRK08252 1042878013460 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878013461 substrate binding site [chemical binding]; other site 1042878013462 oxyanion hole (OAH) forming residues; other site 1042878013463 trimer interface [polypeptide binding]; other site 1042878013464 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878013465 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1042878013466 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878013467 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1042878013468 ATP-grasp domain; Region: ATP-grasp; pfam02222 1042878013469 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1042878013470 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1042878013471 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1042878013472 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878013473 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878013474 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878013475 dimerization interface [polypeptide binding]; other site 1042878013476 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1042878013477 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1042878013478 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042878013479 Zn2+ binding site [ion binding]; other site 1042878013480 Mg2+ binding site [ion binding]; other site 1042878013481 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1042878013482 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1042878013483 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 1042878013484 dimer interface [polypeptide binding]; other site 1042878013485 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878013486 catalytic residue [active] 1042878013487 Propionate catabolism activator; Region: PrpR_N; pfam06506 1042878013488 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1042878013489 PAS domain; Region: PAS; smart00091 1042878013490 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878013491 Walker A motif; other site 1042878013492 ATP binding site [chemical binding]; other site 1042878013493 Walker B motif; other site 1042878013494 arginine finger; other site 1042878013495 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878013496 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1042878013497 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1042878013498 tetramer interface [polypeptide binding]; other site 1042878013499 active site 1042878013500 Mg2+/Mn2+ binding site [ion binding]; other site 1042878013501 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1042878013502 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 1042878013503 dimer interface [polypeptide binding]; other site 1042878013504 active site 1042878013505 citrylCoA binding site [chemical binding]; other site 1042878013506 oxalacetate/citrate binding site [chemical binding]; other site 1042878013507 coenzyme A binding site [chemical binding]; other site 1042878013508 catalytic triad [active] 1042878013509 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1042878013510 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1042878013511 substrate binding site [chemical binding]; other site 1042878013512 ligand binding site [chemical binding]; other site 1042878013513 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 1042878013514 substrate binding site [chemical binding]; other site 1042878013515 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1042878013516 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1042878013517 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1042878013518 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1042878013519 active site 1042878013520 homodimer interface [polypeptide binding]; other site 1042878013521 homotetramer interface [polypeptide binding]; other site 1042878013522 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042878013523 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878013524 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1042878013525 CoenzymeA binding site [chemical binding]; other site 1042878013526 subunit interaction site [polypeptide binding]; other site 1042878013527 PHB binding site; other site 1042878013528 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1042878013529 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1042878013530 MOSC domain; Region: MOSC; pfam03473 1042878013531 3-alpha domain; Region: 3-alpha; pfam03475 1042878013532 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1042878013533 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1042878013534 catalytic triad [active] 1042878013535 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1042878013536 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1042878013537 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 1042878013538 active site 1042878013539 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1042878013540 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878013541 NAD binding site [chemical binding]; other site 1042878013542 catalytic residues [active] 1042878013543 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1042878013544 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042878013545 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042878013546 ABC transporter; Region: ABC_tran_2; pfam12848 1042878013547 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042878013548 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1042878013549 dimer interface [polypeptide binding]; other site 1042878013550 catalytic triad [active] 1042878013551 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 1042878013552 nucleoside/Zn binding site; other site 1042878013553 dimer interface [polypeptide binding]; other site 1042878013554 catalytic motif [active] 1042878013555 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1042878013556 active site 1042878013557 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1042878013558 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878013559 FeS/SAM binding site; other site 1042878013560 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1042878013561 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878013562 putative substrate translocation pore; other site 1042878013563 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cl00470 1042878013564 active site 1042878013565 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1042878013566 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1042878013567 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1042878013568 RNA polymerase sigma factor; Provisional; Region: PRK12540 1042878013569 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878013570 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042878013571 DNA binding residues [nucleotide binding] 1042878013572 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 1042878013573 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878013574 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878013575 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878013576 dimerization interface [polypeptide binding]; other site 1042878013577 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 1042878013578 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1042878013579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878013580 Walker A/P-loop; other site 1042878013581 ATP binding site [chemical binding]; other site 1042878013582 Q-loop/lid; other site 1042878013583 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042878013584 ABC transporter signature motif; other site 1042878013585 Walker B; other site 1042878013586 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042878013587 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1042878013588 putative active site [active] 1042878013589 putative metal binding site [ion binding]; other site 1042878013590 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1042878013591 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1042878013592 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1042878013593 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 1042878013594 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1042878013595 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 1042878013596 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 1042878013597 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1042878013598 B12 binding site [chemical binding]; other site 1042878013599 probable biosynthetic protein, Pnap_2097 family; Region: biosn_Pnap_2097; TIGR04099 1042878013600 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 1042878013601 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878013602 LabA_like proteins; Region: LabA_like/DUF88; cl10034 1042878013603 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 1042878013604 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 1042878013605 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 1042878013606 dimerization interface [polypeptide binding]; other site 1042878013607 putative ATP binding site [chemical binding]; other site 1042878013608 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878013609 Coenzyme A binding pocket [chemical binding]; other site 1042878013610 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 1042878013611 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878013612 FeS/SAM binding site; other site 1042878013613 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1042878013614 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 1042878013615 putative active site [active] 1042878013616 catalytic triad [active] 1042878013617 putative dimer interface [polypeptide binding]; other site 1042878013618 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 1042878013619 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878013620 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878013621 DNA-binding site [nucleotide binding]; DNA binding site 1042878013622 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878013623 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878013624 homodimer interface [polypeptide binding]; other site 1042878013625 catalytic residue [active] 1042878013626 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1042878013627 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878013628 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 1042878013629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878013630 NAD(P) binding site [chemical binding]; other site 1042878013631 active site 1042878013632 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1042878013633 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878013634 catalytic loop [active] 1042878013635 iron binding site [ion binding]; other site 1042878013636 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 1042878013637 FAD binding pocket [chemical binding]; other site 1042878013638 FAD binding motif [chemical binding]; other site 1042878013639 phosphate binding motif [ion binding]; other site 1042878013640 beta-alpha-beta structure motif; other site 1042878013641 NAD binding pocket [chemical binding]; other site 1042878013642 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 1042878013643 inter-subunit interface; other site 1042878013644 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1042878013645 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 1042878013646 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 1042878013647 putative alpha subunit interface [polypeptide binding]; other site 1042878013648 putative active site [active] 1042878013649 putative substrate binding site [chemical binding]; other site 1042878013650 Fe binding site [ion binding]; other site 1042878013651 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1042878013652 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 1042878013653 dimer interface [polypeptide binding]; other site 1042878013654 active site 1042878013655 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1042878013656 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878013657 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 1042878013658 dimerizarion interface [polypeptide binding]; other site 1042878013659 CrgA pocket; other site 1042878013660 substrate binding pocket [chemical binding]; other site 1042878013661 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 1042878013662 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1042878013663 octamer interface [polypeptide binding]; other site 1042878013664 active site 1042878013665 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 1042878013666 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1042878013667 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1042878013668 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878013669 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878013670 AMP-binding domain protein; Validated; Region: PRK08315 1042878013671 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878013672 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1042878013673 acyl-activating enzyme (AAE) consensus motif; other site 1042878013674 putative AMP binding site [chemical binding]; other site 1042878013675 putative active site [active] 1042878013676 putative CoA binding site [chemical binding]; other site 1042878013677 isovaleryl-CoA dehydrogenase; Region: PLN02519 1042878013678 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1042878013679 substrate binding site [chemical binding]; other site 1042878013680 FAD binding site [chemical binding]; other site 1042878013681 catalytic base [active] 1042878013682 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1042878013683 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1042878013684 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1042878013685 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042878013686 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042878013687 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1042878013688 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1042878013689 carboxyltransferase (CT) interaction site; other site 1042878013690 biotinylation site [posttranslational modification]; other site 1042878013691 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1042878013692 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1042878013693 active site 1042878013694 catalytic residues [active] 1042878013695 metal binding site [ion binding]; metal-binding site 1042878013696 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1042878013697 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1042878013698 conserved cys residue [active] 1042878013699 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878013700 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 1042878013701 thioredoxin reductase; Provisional; Region: PRK10262 1042878013702 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878013703 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878013704 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1042878013705 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878013706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878013707 homodimer interface [polypeptide binding]; other site 1042878013708 catalytic residue [active] 1042878013709 cystathionine beta-lyase, bacterial; Region: cysta_beta_ly_B; TIGR01324 1042878013710 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1042878013711 homodimer interface [polypeptide binding]; other site 1042878013712 substrate-cofactor binding pocket; other site 1042878013713 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878013714 catalytic residue [active] 1042878013715 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042878013716 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878013717 substrate binding pocket [chemical binding]; other site 1042878013718 membrane-bound complex binding site; other site 1042878013719 hinge residues; other site 1042878013720 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042878013721 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878013722 dimer interface [polypeptide binding]; other site 1042878013723 conserved gate region; other site 1042878013724 putative PBP binding loops; other site 1042878013725 ABC-ATPase subunit interface; other site 1042878013726 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042878013727 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042878013728 Walker A/P-loop; other site 1042878013729 ATP binding site [chemical binding]; other site 1042878013730 Q-loop/lid; other site 1042878013731 ABC transporter signature motif; other site 1042878013732 Walker B; other site 1042878013733 D-loop; other site 1042878013734 H-loop/switch region; other site 1042878013735 D-cysteine desulfhydrase; Validated; Region: PRK03910 1042878013736 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 1042878013737 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878013738 catalytic residue [active] 1042878013739 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1042878013740 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1042878013741 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1042878013742 Aspartase; Region: Aspartase; cd01357 1042878013743 active sites [active] 1042878013744 tetramer interface [polypeptide binding]; other site 1042878013745 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878013746 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878013747 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878013748 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1042878013749 active site residue [active] 1042878013750 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1042878013751 active site residue [active] 1042878013752 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1042878013753 active site residue [active] 1042878013754 GMP synthase; Reviewed; Region: guaA; PRK00074 1042878013755 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1042878013756 AMP/PPi binding site [chemical binding]; other site 1042878013757 candidate oxyanion hole; other site 1042878013758 catalytic triad [active] 1042878013759 potential glutamine specificity residues [chemical binding]; other site 1042878013760 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 1042878013761 ATP Binding subdomain [chemical binding]; other site 1042878013762 Ligand Binding sites [chemical binding]; other site 1042878013763 Dimerization subdomain; other site 1042878013764 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1042878013765 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1042878013766 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 1042878013767 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1042878013768 active site 1042878013769 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042878013770 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1042878013771 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 1042878013772 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1042878013773 putative coenzyme Q binding site [chemical binding]; other site 1042878013774 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 1042878013775 SmpB-tmRNA interface; other site 1042878013776 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1042878013777 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1042878013778 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 1042878013779 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1042878013780 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1042878013781 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1042878013782 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1042878013783 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1042878013784 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1042878013785 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1042878013786 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1042878013787 RNA/DNA hybrid binding site [nucleotide binding]; other site 1042878013788 active site 1042878013789 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1042878013790 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1042878013791 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1042878013792 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 1042878013793 active site 1042878013794 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 1042878013795 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1042878013796 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1042878013797 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 1042878013798 trimer interface [polypeptide binding]; other site 1042878013799 active site 1042878013800 UDP-GlcNAc binding site [chemical binding]; other site 1042878013801 lipid binding site [chemical binding]; lipid-binding site 1042878013802 periplasmic chaperone; Provisional; Region: PRK10780 1042878013803 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1042878013804 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1042878013805 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1042878013806 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1042878013807 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1042878013808 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1042878013809 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1042878013810 Surface antigen; Region: Bac_surface_Ag; pfam01103 1042878013811 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 1042878013812 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1042878013813 active site 1042878013814 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 1042878013815 protein binding site [polypeptide binding]; other site 1042878013816 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1042878013817 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1042878013818 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1042878013819 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1042878013820 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1042878013821 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1042878013822 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1042878013823 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 1042878013824 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1042878013825 catalytic residue [active] 1042878013826 putative FPP diphosphate binding site; other site 1042878013827 putative FPP binding hydrophobic cleft; other site 1042878013828 dimer interface [polypeptide binding]; other site 1042878013829 putative IPP diphosphate binding site; other site 1042878013830 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1042878013831 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 1042878013832 hinge region; other site 1042878013833 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 1042878013834 putative nucleotide binding site [chemical binding]; other site 1042878013835 uridine monophosphate binding site [chemical binding]; other site 1042878013836 homohexameric interface [polypeptide binding]; other site 1042878013837 elongation factor Ts; Provisional; Region: tsf; PRK09377 1042878013838 UBA/TS-N domain; Region: UBA; pfam00627 1042878013839 Elongation factor TS; Region: EF_TS; pfam00889 1042878013840 Elongation factor TS; Region: EF_TS; pfam00889 1042878013841 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 1042878013842 rRNA interaction site [nucleotide binding]; other site 1042878013843 S8 interaction site; other site 1042878013844 putative laminin-1 binding site; other site 1042878013845 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 1042878013846 active site 1042878013847 PII uridylyl-transferase; Provisional; Region: PRK03059 1042878013848 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1042878013849 metal binding triad; other site 1042878013850 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1042878013851 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042878013852 Zn2+ binding site [ion binding]; other site 1042878013853 Mg2+ binding site [ion binding]; other site 1042878013854 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 1042878013855 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 1042878013856 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1042878013857 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1042878013858 RNA binding surface [nucleotide binding]; other site 1042878013859 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1042878013860 active site 1042878013861 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 1042878013862 active site 1042878013863 catalytic residues [active] 1042878013864 metal binding site [ion binding]; metal-binding site 1042878013865 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1042878013866 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 1042878013867 nucleotide binding pocket [chemical binding]; other site 1042878013868 K-X-D-G motif; other site 1042878013869 catalytic site [active] 1042878013870 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1042878013871 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1042878013872 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 1042878013873 Dimer interface [polypeptide binding]; other site 1042878013874 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 1042878013875 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1042878013876 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1042878013877 Walker A/P-loop; other site 1042878013878 ATP binding site [chemical binding]; other site 1042878013879 Q-loop/lid; other site 1042878013880 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1042878013881 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1042878013882 Q-loop/lid; other site 1042878013883 ABC transporter signature motif; other site 1042878013884 Walker B; other site 1042878013885 D-loop; other site 1042878013886 H-loop/switch region; other site 1042878013887 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1042878013888 dinuclear metal binding motif [ion binding]; other site 1042878013889 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1042878013890 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878013891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878013892 homodimer interface [polypeptide binding]; other site 1042878013893 catalytic residue [active] 1042878013894 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1042878013895 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 1042878013896 trimer interface [polypeptide binding]; other site 1042878013897 active site 1042878013898 substrate binding site [chemical binding]; other site 1042878013899 CoA binding site [chemical binding]; other site 1042878013900 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 1042878013901 ArsC family; Region: ArsC; pfam03960 1042878013902 putative catalytic residues [active] 1042878013903 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1042878013904 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1042878013905 metal binding site [ion binding]; metal-binding site 1042878013906 dimer interface [polypeptide binding]; other site 1042878013907 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1042878013908 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878013909 S-adenosylmethionine binding site [chemical binding]; other site 1042878013910 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878013911 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878013912 putative substrate translocation pore; other site 1042878013913 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1042878013914 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1042878013915 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1042878013916 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878013917 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878013918 non-specific DNA binding site [nucleotide binding]; other site 1042878013919 salt bridge; other site 1042878013920 sequence-specific DNA binding site [nucleotide binding]; other site 1042878013921 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878013922 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1042878013923 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878013924 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1042878013925 acyl-activating enzyme (AAE) consensus motif; other site 1042878013926 acyl-activating enzyme (AAE) consensus motif; other site 1042878013927 putative AMP binding site [chemical binding]; other site 1042878013928 putative active site [active] 1042878013929 putative CoA binding site [chemical binding]; other site 1042878013930 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878013931 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878013932 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1042878013933 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042878013934 NAD(P) binding site [chemical binding]; other site 1042878013935 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878013936 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878013937 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878013938 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878013939 dimerization interface [polypeptide binding]; other site 1042878013940 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 1042878013941 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1042878013942 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1042878013943 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1042878013944 putative acyl-acceptor binding pocket; other site 1042878013945 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 1042878013946 active site 1042878013947 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 1042878013948 active site 1042878013949 catalytic residues [active] 1042878013950 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1042878013951 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042878013952 Putative methyltransferase; Region: Methyltransf_20; pfam12147 1042878013953 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1042878013954 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 1042878013955 putative active site [active] 1042878013956 Zn binding site [ion binding]; other site 1042878013957 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 1042878013958 SxDxEG motif; other site 1042878013959 active site 1042878013960 metal binding site [ion binding]; metal-binding site 1042878013961 homopentamer interface [polypeptide binding]; other site 1042878013962 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 1042878013963 homodimer interface [polypeptide binding]; other site 1042878013964 homotetramer interface [polypeptide binding]; other site 1042878013965 active site pocket [active] 1042878013966 cleavage site 1042878013967 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 1042878013968 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1042878013969 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878013970 dimer interface [polypeptide binding]; other site 1042878013971 conserved gate region; other site 1042878013972 putative PBP binding loops; other site 1042878013973 ABC-ATPase subunit interface; other site 1042878013974 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 1042878013975 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878013976 dimer interface [polypeptide binding]; other site 1042878013977 conserved gate region; other site 1042878013978 putative PBP binding loops; other site 1042878013979 ABC-ATPase subunit interface; other site 1042878013980 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 1042878013981 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 1042878013982 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 1042878013983 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878013984 Walker A/P-loop; other site 1042878013985 ATP binding site [chemical binding]; other site 1042878013986 Q-loop/lid; other site 1042878013987 ABC transporter signature motif; other site 1042878013988 Walker B; other site 1042878013989 D-loop; other site 1042878013990 H-loop/switch region; other site 1042878013991 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1042878013992 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878013993 Walker A/P-loop; other site 1042878013994 ATP binding site [chemical binding]; other site 1042878013995 Q-loop/lid; other site 1042878013996 ABC transporter signature motif; other site 1042878013997 Walker B; other site 1042878013998 D-loop; other site 1042878013999 H-loop/switch region; other site 1042878014000 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1042878014001 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 1042878014002 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 1042878014003 catalytic nucleophile [active] 1042878014004 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1042878014005 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1042878014006 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1042878014007 putative active site [active] 1042878014008 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1042878014009 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042878014010 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042878014011 ABC transporter; Region: ABC_tran_2; pfam12848 1042878014012 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042878014013 disulfide bond formation protein B; Provisional; Region: PRK02110 1042878014014 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1042878014015 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1042878014016 DNA repair protein RadA; Provisional; Region: PRK11823 1042878014017 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1042878014018 Walker A motif; other site 1042878014019 ATP binding site [chemical binding]; other site 1042878014020 Walker B motif; other site 1042878014021 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1042878014022 alanine racemase; Reviewed; Region: dadX; PRK03646 1042878014023 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1042878014024 active site 1042878014025 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042878014026 substrate binding site [chemical binding]; other site 1042878014027 catalytic residues [active] 1042878014028 dimer interface [polypeptide binding]; other site 1042878014029 lysophospholipid transporter LplT; Provisional; Region: PRK11195 1042878014030 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 1042878014031 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1042878014032 Fe-S cluster binding site [ion binding]; other site 1042878014033 active site 1042878014034 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1042878014035 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878014036 Coenzyme A binding pocket [chemical binding]; other site 1042878014037 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1042878014038 Glycoprotease family; Region: Peptidase_M22; pfam00814 1042878014039 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 1042878014040 acyl-CoA binding pocket [chemical binding]; other site 1042878014041 CoA binding site [chemical binding]; other site 1042878014042 putative transporter; Provisional; Region: PRK10504 1042878014043 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878014044 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878014045 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 1042878014046 putative hydrophobic ligand binding site [chemical binding]; other site 1042878014047 SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of...; Region: SGNH_arylesterase_like; cd01839 1042878014048 active site 1042878014049 oxyanion hole [active] 1042878014050 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878014051 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 1042878014052 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1042878014053 PemK-like protein; Region: PemK; pfam02452 1042878014054 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1042878014055 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1042878014056 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1042878014057 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1042878014058 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878014059 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878014060 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1042878014061 putative dimerization interface [polypeptide binding]; other site 1042878014062 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1042878014063 Beta-lactamase; Region: Beta-lactamase; pfam00144 1042878014064 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 1042878014065 Cytochrome c; Region: Cytochrom_C; pfam00034 1042878014066 potential frameshift: common BLAST hit: gi|113868106|ref|YP_726595.1| L-alanine-DL-glutamate epimerase 1042878014067 Enolase C-terminal domain-like; Region: MR_MLE_C; pfam13378 1042878014068 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1042878014069 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1042878014070 active site pocket [active] 1042878014071 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878014072 enolase; Provisional; Region: eno; PRK00077 1042878014073 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 1042878014074 dimer interface [polypeptide binding]; other site 1042878014075 metal binding site [ion binding]; metal-binding site 1042878014076 substrate binding pocket [chemical binding]; other site 1042878014077 pyruvate kinase; Provisional; Region: PRK06247 1042878014078 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1042878014079 domain interfaces; other site 1042878014080 active site 1042878014081 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1042878014082 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1042878014083 MOFRL family; Region: MOFRL; pfam05161 1042878014084 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1042878014085 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042878014086 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1042878014087 tartrate dehydrogenase; Region: TTC; TIGR02089 1042878014088 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1042878014089 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878014090 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 1042878014091 putative effector binding pocket; other site 1042878014092 putative dimerization interface [polypeptide binding]; other site 1042878014093 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878014094 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878014095 active site 1042878014096 phosphorylation site [posttranslational modification] 1042878014097 intermolecular recognition site; other site 1042878014098 dimerization interface [polypeptide binding]; other site 1042878014099 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878014100 DNA binding residues [nucleotide binding] 1042878014101 dimerization interface [polypeptide binding]; other site 1042878014102 MASE1; Region: MASE1; cl17823 1042878014103 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1042878014104 Histidine kinase; Region: HisKA_3; pfam07730 1042878014105 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878014106 ATP binding site [chemical binding]; other site 1042878014107 Mg2+ binding site [ion binding]; other site 1042878014108 G-X-G motif; other site 1042878014109 HAMP domain; Region: HAMP; pfam00672 1042878014110 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042878014111 Zn2+ binding site [ion binding]; other site 1042878014112 Mg2+ binding site [ion binding]; other site 1042878014113 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042878014114 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 1042878014115 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 1042878014116 NAD(P) binding site [chemical binding]; other site 1042878014117 LDH/MDH dimer interface [polypeptide binding]; other site 1042878014118 substrate binding site [chemical binding]; other site 1042878014119 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1042878014120 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 1042878014121 transmembrane helices; other site 1042878014122 multidrug resistance protein MdtN; Provisional; Region: PRK10476 1042878014123 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878014124 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878014125 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1042878014126 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1042878014127 Outer membrane efflux protein; Region: OEP; pfam02321 1042878014128 Outer membrane efflux protein; Region: OEP; pfam02321 1042878014129 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1042878014130 Ferritin-like domain; Region: Ferritin; pfam00210 1042878014131 dinuclear metal binding motif [ion binding]; other site 1042878014132 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1042878014133 Ligand Binding Site [chemical binding]; other site 1042878014134 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878014135 LysR family transcriptional regulator; Provisional; Region: PRK14997 1042878014136 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1042878014137 putative effector binding pocket; other site 1042878014138 putative dimerization interface [polypeptide binding]; other site 1042878014139 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1042878014140 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1042878014141 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1042878014142 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 1042878014143 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1042878014144 Cl binding site [ion binding]; other site 1042878014145 oligomer interface [polypeptide binding]; other site 1042878014146 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 1042878014147 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 1042878014148 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1042878014149 NAD(P) binding site [chemical binding]; other site 1042878014150 homotetramer interface [polypeptide binding]; other site 1042878014151 homodimer interface [polypeptide binding]; other site 1042878014152 active site 1042878014153 Phasin protein; Region: Phasin_2; pfam09361 1042878014154 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1042878014155 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1042878014156 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042878014157 motif II; other site 1042878014158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1042878014159 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878014160 putative DNA binding site [nucleotide binding]; other site 1042878014161 putative Zn2+ binding site [ion binding]; other site 1042878014162 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1042878014163 Sodium Bile acid symporter family; Region: SBF; cl17470 1042878014164 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1042878014165 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1042878014166 active site 1042878014167 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_20; cd07254 1042878014168 putative metal binding site [ion binding]; other site 1042878014169 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878014170 dimerization interface [polypeptide binding]; other site 1042878014171 putative DNA binding site [nucleotide binding]; other site 1042878014172 putative Zn2+ binding site [ion binding]; other site 1042878014173 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1042878014174 Alkaline phosphatase homologues; Region: alkPPc; smart00098 1042878014175 active site 1042878014176 dimer interface [polypeptide binding]; other site 1042878014177 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 1042878014178 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1042878014179 dimer interface [polypeptide binding]; other site 1042878014180 active site 1042878014181 Outer membrane efflux protein; Region: OEP; pfam02321 1042878014182 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1042878014183 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878014184 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1042878014185 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1042878014186 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 1042878014187 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042878014188 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1042878014189 FMN binding site [chemical binding]; other site 1042878014190 active site 1042878014191 substrate binding site [chemical binding]; other site 1042878014192 catalytic residue [active] 1042878014193 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878014194 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1042878014195 catalytic triad [active] 1042878014196 conserved cis-peptide bond; other site 1042878014197 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1042878014198 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1042878014199 elongation factor P; Validated; Region: PRK00529 1042878014200 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1042878014201 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 1042878014202 RNA binding site [nucleotide binding]; other site 1042878014203 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 1042878014204 RNA binding site [nucleotide binding]; other site 1042878014205 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1042878014206 Ligand Binding Site [chemical binding]; other site 1042878014207 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1042878014208 tetramer interface [polypeptide binding]; other site 1042878014209 active site 1042878014210 Mg2+/Mn2+ binding site [ion binding]; other site 1042878014211 isocitrate lyase; Region: PLN02892 1042878014212 Helix-turn-helix domain; Region: HTH_18; pfam12833 1042878014213 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042878014214 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042878014215 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1042878014216 Dienelactone hydrolase family; Region: DLH; pfam01738 1042878014217 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1042878014218 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 1042878014219 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878014220 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878014221 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1042878014222 putative dimerization interface [polypeptide binding]; other site 1042878014223 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1042878014224 hypothetical protein; Provisional; Region: PRK08201 1042878014225 metal binding site [ion binding]; metal-binding site 1042878014226 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878014227 malate synthase A; Region: malate_syn_A; TIGR01344 1042878014228 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 1042878014229 active site 1042878014230 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1042878014231 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 1042878014232 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878014233 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878014234 putative effector binding pocket; other site 1042878014235 dimerization interface [polypeptide binding]; other site 1042878014236 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1042878014237 Ligand Binding Site [chemical binding]; other site 1042878014238 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1042878014239 isocitrate lyase; Provisional; Region: PRK15063 1042878014240 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1042878014241 tetramer interface [polypeptide binding]; other site 1042878014242 active site 1042878014243 Mg2+/Mn2+ binding site [ion binding]; other site 1042878014244 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042878014245 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042878014246 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1042878014247 putative active site pocket [active] 1042878014248 dimerization interface [polypeptide binding]; other site 1042878014249 putative catalytic residue [active] 1042878014250 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1042878014251 thiamine pyrophosphate protein; Validated; Region: PRK08199 1042878014252 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042878014253 PYR/PP interface [polypeptide binding]; other site 1042878014254 dimer interface [polypeptide binding]; other site 1042878014255 TPP binding site [chemical binding]; other site 1042878014256 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042878014257 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 1042878014258 TPP-binding site [chemical binding]; other site 1042878014259 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878014260 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1042878014261 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878014262 active site 1042878014263 phosphorylation site [posttranslational modification] 1042878014264 intermolecular recognition site; other site 1042878014265 dimerization interface [polypeptide binding]; other site 1042878014266 LytTr DNA-binding domain; Region: LytTR; smart00850 1042878014267 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1042878014268 Histidine kinase; Region: His_kinase; pfam06580 1042878014269 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878014270 ATP binding site [chemical binding]; other site 1042878014271 Mg2+ binding site [ion binding]; other site 1042878014272 G-X-G motif; other site 1042878014273 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 1042878014274 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1042878014275 substrate binding site [chemical binding]; other site 1042878014276 dimerization interface [polypeptide binding]; other site 1042878014277 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1042878014278 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1042878014279 Walker A/P-loop; other site 1042878014280 ATP binding site [chemical binding]; other site 1042878014281 Q-loop/lid; other site 1042878014282 ABC transporter signature motif; other site 1042878014283 Walker B; other site 1042878014284 D-loop; other site 1042878014285 H-loop/switch region; other site 1042878014286 TOBE-like domain; Region: TOBE_3; pfam12857 1042878014287 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1042878014288 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878014289 dimer interface [polypeptide binding]; other site 1042878014290 conserved gate region; other site 1042878014291 putative PBP binding loops; other site 1042878014292 ABC-ATPase subunit interface; other site 1042878014293 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1042878014294 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878014295 dimer interface [polypeptide binding]; other site 1042878014296 conserved gate region; other site 1042878014297 putative PBP binding loops; other site 1042878014298 ABC-ATPase subunit interface; other site 1042878014299 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1042878014300 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878014301 EAL domain; Region: EAL; pfam00563 1042878014302 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 1042878014303 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1042878014304 Walker A/P-loop; other site 1042878014305 ATP binding site [chemical binding]; other site 1042878014306 Q-loop/lid; other site 1042878014307 ABC transporter signature motif; other site 1042878014308 Walker B; other site 1042878014309 D-loop; other site 1042878014310 H-loop/switch region; other site 1042878014311 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042878014312 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878014313 putative PBP binding loops; other site 1042878014314 dimer interface [polypeptide binding]; other site 1042878014315 ABC-ATPase subunit interface; other site 1042878014316 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1042878014317 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1042878014318 active site 1042878014319 dimer interface [polypeptide binding]; other site 1042878014320 non-prolyl cis peptide bond; other site 1042878014321 insertion regions; other site 1042878014322 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1042878014323 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878014324 substrate binding pocket [chemical binding]; other site 1042878014325 membrane-bound complex binding site; other site 1042878014326 hinge residues; other site 1042878014327 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042878014328 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 1042878014329 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878014330 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1042878014331 substrate binding pocket [chemical binding]; other site 1042878014332 membrane-bound complex binding site; other site 1042878014333 Ferritin-like domain; Region: Ferritin; pfam00210 1042878014334 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1042878014335 dinuclear metal binding motif [ion binding]; other site 1042878014336 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1042878014337 Clp amino terminal domain; Region: Clp_N; pfam02861 1042878014338 Clp amino terminal domain; Region: Clp_N; pfam02861 1042878014339 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878014340 Walker A motif; other site 1042878014341 ATP binding site [chemical binding]; other site 1042878014342 Walker B motif; other site 1042878014343 arginine finger; other site 1042878014344 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878014345 Walker A motif; other site 1042878014346 ATP binding site [chemical binding]; other site 1042878014347 Walker B motif; other site 1042878014348 arginine finger; other site 1042878014349 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1042878014350 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1042878014351 active site 2 [active] 1042878014352 active site 1 [active] 1042878014353 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 1042878014354 dimer interaction site [polypeptide binding]; other site 1042878014355 substrate-binding tunnel; other site 1042878014356 active site 1042878014357 catalytic site [active] 1042878014358 substrate binding site [chemical binding]; other site 1042878014359 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 1042878014360 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1042878014361 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878014362 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1042878014363 acyl-activating enzyme (AAE) consensus motif; other site 1042878014364 acyl-activating enzyme (AAE) consensus motif; other site 1042878014365 putative AMP binding site [chemical binding]; other site 1042878014366 putative active site [active] 1042878014367 putative CoA binding site [chemical binding]; other site 1042878014368 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1042878014369 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878014370 TM-ABC transporter signature motif; other site 1042878014371 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878014372 TM-ABC transporter signature motif; other site 1042878014373 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878014374 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878014375 Walker A/P-loop; other site 1042878014376 ATP binding site [chemical binding]; other site 1042878014377 Q-loop/lid; other site 1042878014378 ABC transporter signature motif; other site 1042878014379 Walker B; other site 1042878014380 D-loop; other site 1042878014381 H-loop/switch region; other site 1042878014382 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878014383 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878014384 Walker A/P-loop; other site 1042878014385 ATP binding site [chemical binding]; other site 1042878014386 Q-loop/lid; other site 1042878014387 ABC transporter signature motif; other site 1042878014388 Walker B; other site 1042878014389 D-loop; other site 1042878014390 H-loop/switch region; other site 1042878014391 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878014392 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 1042878014393 putative ligand binding site [chemical binding]; other site 1042878014394 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042878014395 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878014396 substrate binding site [chemical binding]; other site 1042878014397 oxyanion hole (OAH) forming residues; other site 1042878014398 trimer interface [polypeptide binding]; other site 1042878014399 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878014400 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878014401 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878014402 chromosome condensation membrane protein; Provisional; Region: PRK14196 1042878014403 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 1042878014404 MoaE homodimer interface [polypeptide binding]; other site 1042878014405 MoaD interaction [polypeptide binding]; other site 1042878014406 active site residues [active] 1042878014407 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1042878014408 MoaE interaction surface [polypeptide binding]; other site 1042878014409 MoeB interaction surface [polypeptide binding]; other site 1042878014410 thiocarboxylated glycine; other site 1042878014411 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1042878014412 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 1042878014413 dimer interface [polypeptide binding]; other site 1042878014414 putative functional site; other site 1042878014415 putative MPT binding site; other site 1042878014416 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1042878014417 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 1042878014418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878014419 catalytic residue [active] 1042878014420 homoserine dehydrogenase; Provisional; Region: PRK06349 1042878014421 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1042878014422 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1042878014423 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 1042878014424 aminotransferase AlaT; Validated; Region: PRK09265 1042878014425 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878014426 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878014427 homodimer interface [polypeptide binding]; other site 1042878014428 catalytic residue [active] 1042878014429 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 1042878014430 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1042878014431 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 1042878014432 catalytic triad [active] 1042878014433 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1042878014434 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1042878014435 putative active site [active] 1042878014436 PhoH-like protein; Region: PhoH; pfam02562 1042878014437 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1042878014438 NlpC/P60 family; Region: NLPC_P60; pfam00877 1042878014439 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1042878014440 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1042878014441 replicative DNA helicase; Provisional; Region: PRK07004 1042878014442 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1042878014443 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 1042878014444 Walker A motif; other site 1042878014445 ATP binding site [chemical binding]; other site 1042878014446 Walker B motif; other site 1042878014447 DNA binding loops [nucleotide binding] 1042878014448 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1042878014449 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1042878014450 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1042878014451 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1042878014452 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1042878014453 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1042878014454 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1042878014455 active site 1042878014456 homodimer interface [polypeptide binding]; other site 1042878014457 homotetramer interface [polypeptide binding]; other site 1042878014458 LexA repressor; Validated; Region: PRK00215 1042878014459 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1042878014460 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1042878014461 Catalytic site [active] 1042878014462 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1042878014463 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 1042878014464 FMN binding site [chemical binding]; other site 1042878014465 active site 1042878014466 catalytic residues [active] 1042878014467 substrate binding site [chemical binding]; other site 1042878014468 Predicted flavoprotein [General function prediction only]; Region: COG0431 1042878014469 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042878014470 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1042878014471 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878014472 substrate binding site [chemical binding]; other site 1042878014473 oxyanion hole (OAH) forming residues; other site 1042878014474 trimer interface [polypeptide binding]; other site 1042878014475 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1042878014476 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1042878014477 Tar ligand binding domain homologue; Region: TarH; pfam02203 1042878014478 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1042878014479 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042878014480 dimer interface [polypeptide binding]; other site 1042878014481 putative CheW interface [polypeptide binding]; other site 1042878014482 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1042878014483 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1042878014484 Right handed beta helix region; Region: Beta_helix; pfam13229 1042878014485 Autotransporter beta-domain; Region: Autotransporter; smart00869 1042878014486 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1042878014487 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1042878014488 G1 box; other site 1042878014489 putative GEF interaction site [polypeptide binding]; other site 1042878014490 GTP/Mg2+ binding site [chemical binding]; other site 1042878014491 Switch I region; other site 1042878014492 G2 box; other site 1042878014493 G3 box; other site 1042878014494 Switch II region; other site 1042878014495 G4 box; other site 1042878014496 G5 box; other site 1042878014497 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 1042878014498 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 1042878014499 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878014500 MarR family; Region: MarR; pfam01047 1042878014501 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042878014502 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1042878014503 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878014504 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878014505 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1042878014506 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878014507 putative substrate translocation pore; other site 1042878014508 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878014509 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1042878014510 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878014511 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878014512 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 1042878014513 active site pocket [active] 1042878014514 oxyanion hole [active] 1042878014515 catalytic triad [active] 1042878014516 active site nucleophile [active] 1042878014517 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 1042878014518 AroM protein; Region: AroM; pfam07302 1042878014519 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878014520 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 1042878014521 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1042878014522 RNA binding site [nucleotide binding]; other site 1042878014523 active site 1042878014524 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1042878014525 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1042878014526 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1042878014527 translation initiation factor IF-2; Region: IF-2; TIGR00487 1042878014528 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1042878014529 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1042878014530 G1 box; other site 1042878014531 putative GEF interaction site [polypeptide binding]; other site 1042878014532 GTP/Mg2+ binding site [chemical binding]; other site 1042878014533 Switch I region; other site 1042878014534 G2 box; other site 1042878014535 G3 box; other site 1042878014536 Switch II region; other site 1042878014537 G4 box; other site 1042878014538 G5 box; other site 1042878014539 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 1042878014540 Translation-initiation factor 2; Region: IF-2; pfam11987 1042878014541 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 1042878014542 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1042878014543 NusA N-terminal domain; Region: NusA_N; pfam08529 1042878014544 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 1042878014545 RNA binding site [nucleotide binding]; other site 1042878014546 homodimer interface [polypeptide binding]; other site 1042878014547 NusA-like KH domain; Region: KH_5; pfam13184 1042878014548 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 1042878014549 G-X-X-G motif; other site 1042878014550 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1042878014551 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1042878014552 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1042878014553 Sm and related proteins; Region: Sm_like; cl00259 1042878014554 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1042878014555 putative oligomer interface [polypeptide binding]; other site 1042878014556 putative RNA binding site [nucleotide binding]; other site 1042878014557 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1042878014558 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1042878014559 RNA binding surface [nucleotide binding]; other site 1042878014560 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1042878014561 probable active site [active] 1042878014562 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1042878014563 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1042878014564 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1042878014565 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042878014566 ligand binding site [chemical binding]; other site 1042878014567 flexible hinge region; other site 1042878014568 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1042878014569 putative switch regulator; other site 1042878014570 non-specific DNA interactions [nucleotide binding]; other site 1042878014571 DNA binding site [nucleotide binding] 1042878014572 sequence specific DNA binding site [nucleotide binding]; other site 1042878014573 putative cAMP binding site [chemical binding]; other site 1042878014574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1042878014575 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1042878014576 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1042878014577 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1042878014578 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1042878014579 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1042878014580 Cytochrome c; Region: Cytochrom_C; pfam00034 1042878014581 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 1042878014582 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1042878014583 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1042878014584 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 1042878014585 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1042878014586 Low-spin heme binding site [chemical binding]; other site 1042878014587 Putative water exit pathway; other site 1042878014588 Binuclear center (active site) [active] 1042878014589 Putative proton exit pathway; other site 1042878014590 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 1042878014591 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1042878014592 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1042878014593 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1042878014594 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1042878014595 Predicted ATPase [General function prediction only]; Region: COG1485 1042878014596 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878014597 Walker B; other site 1042878014598 D-loop; other site 1042878014599 H-loop/switch region; other site 1042878014600 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1042878014601 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878014602 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1042878014603 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1042878014604 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1042878014605 E3 interaction surface; other site 1042878014606 lipoyl attachment site [posttranslational modification]; other site 1042878014607 e3 binding domain; Region: E3_binding; pfam02817 1042878014608 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1042878014609 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1042878014610 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 1042878014611 TPP-binding site [chemical binding]; other site 1042878014612 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1042878014613 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 1042878014614 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 1042878014615 putative active site [active] 1042878014616 catalytic site [active] 1042878014617 putative metal binding site [ion binding]; other site 1042878014618 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1042878014619 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1042878014620 Walker A/P-loop; other site 1042878014621 ATP binding site [chemical binding]; other site 1042878014622 Q-loop/lid; other site 1042878014623 ABC transporter signature motif; other site 1042878014624 Walker B; other site 1042878014625 D-loop; other site 1042878014626 H-loop/switch region; other site 1042878014627 TOBE domain; Region: TOBE_2; pfam08402 1042878014628 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1042878014629 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878014630 dimer interface [polypeptide binding]; other site 1042878014631 conserved gate region; other site 1042878014632 putative PBP binding loops; other site 1042878014633 ABC-ATPase subunit interface; other site 1042878014634 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1042878014635 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1042878014636 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878014637 dimer interface [polypeptide binding]; other site 1042878014638 ABC-ATPase subunit interface; other site 1042878014639 putative PBP binding loops; other site 1042878014640 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1042878014641 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1042878014642 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 1042878014643 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1042878014644 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878014645 active site 1042878014646 phosphorylation site [posttranslational modification] 1042878014647 intermolecular recognition site; other site 1042878014648 dimerization interface [polypeptide binding]; other site 1042878014649 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878014650 Walker A motif; other site 1042878014651 ATP binding site [chemical binding]; other site 1042878014652 Walker B motif; other site 1042878014653 arginine finger; other site 1042878014654 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878014655 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1042878014656 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878014657 dimer interface [polypeptide binding]; other site 1042878014658 phosphorylation site [posttranslational modification] 1042878014659 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878014660 ATP binding site [chemical binding]; other site 1042878014661 Mg2+ binding site [ion binding]; other site 1042878014662 G-X-G motif; other site 1042878014663 glutamine synthetase; Provisional; Region: glnA; PRK09469 1042878014664 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1042878014665 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1042878014666 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 1042878014667 active site residue [active] 1042878014668 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 1042878014669 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 1042878014670 putative MPT binding site; other site 1042878014671 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 1042878014672 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1042878014673 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1042878014674 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1042878014675 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1042878014676 NodB motif; other site 1042878014677 active site 1042878014678 metal binding site [ion binding]; metal-binding site 1042878014679 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1042878014680 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1042878014681 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1042878014682 ATP binding site [chemical binding]; other site 1042878014683 putative Mg++ binding site [ion binding]; other site 1042878014684 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042878014685 nucleotide binding region [chemical binding]; other site 1042878014686 ATP-binding site [chemical binding]; other site 1042878014687 Helicase associated domain (HA2); Region: HA2; pfam04408 1042878014688 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1042878014689 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1042878014690 N-acetylglutamate synthase; Validated; Region: PRK05279 1042878014691 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 1042878014692 putative feedback inhibition sensing region; other site 1042878014693 putative nucleotide binding site [chemical binding]; other site 1042878014694 putative substrate binding site [chemical binding]; other site 1042878014695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878014696 Coenzyme A binding pocket [chemical binding]; other site 1042878014697 oxidative damage protection protein; Provisional; Region: PRK05408 1042878014698 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 1042878014699 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1042878014700 active site 1042878014701 dimer interface [polypeptide binding]; other site 1042878014702 transaldolase-like protein; Provisional; Region: PTZ00411 1042878014703 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1042878014704 active site 1042878014705 dimer interface [polypeptide binding]; other site 1042878014706 catalytic residue [active] 1042878014707 NAD-dependent deacetylase; Provisional; Region: PRK00481 1042878014708 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 1042878014709 NAD+ binding site [chemical binding]; other site 1042878014710 substrate binding site [chemical binding]; other site 1042878014711 Zn binding site [ion binding]; other site 1042878014712 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1042878014713 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1042878014714 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1042878014715 ribonuclease R; Region: RNase_R; TIGR02063 1042878014716 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1042878014717 RNB domain; Region: RNB; pfam00773 1042878014718 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 1042878014719 RNA binding site [nucleotide binding]; other site 1042878014720 Predicted transcriptional regulator [Transcription]; Region: COG1959 1042878014721 Transcriptional regulator; Region: Rrf2; pfam02082 1042878014722 Transcriptional regulator; Region: Rrf2; cl17282 1042878014723 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1042878014724 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1042878014725 NAD binding site [chemical binding]; other site 1042878014726 substrate binding site [chemical binding]; other site 1042878014727 putative active site [active] 1042878014728 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 1042878014729 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042878014730 active site 1042878014731 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1042878014732 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 1042878014733 GDP-binding site [chemical binding]; other site 1042878014734 ACT binding site; other site 1042878014735 IMP binding site; other site 1042878014736 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1042878014737 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 1042878014738 dimer interface [polypeptide binding]; other site 1042878014739 motif 1; other site 1042878014740 active site 1042878014741 motif 2; other site 1042878014742 motif 3; other site 1042878014743 HflC protein; Region: hflC; TIGR01932 1042878014744 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 1042878014745 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 1042878014746 HflK protein; Region: hflK; TIGR01933 1042878014747 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1042878014748 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1042878014749 HflX GTPase family; Region: HflX; cd01878 1042878014750 G1 box; other site 1042878014751 GTP/Mg2+ binding site [chemical binding]; other site 1042878014752 Switch I region; other site 1042878014753 G2 box; other site 1042878014754 G3 box; other site 1042878014755 Switch II region; other site 1042878014756 G4 box; other site 1042878014757 G5 box; other site 1042878014758 bacterial Hfq-like; Region: Hfq; cd01716 1042878014759 hexamer interface [polypeptide binding]; other site 1042878014760 Sm1 motif; other site 1042878014761 RNA binding site [nucleotide binding]; other site 1042878014762 Sm2 motif; other site 1042878014763 GTP-binding protein Der; Reviewed; Region: PRK00093 1042878014764 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1042878014765 G1 box; other site 1042878014766 GTP/Mg2+ binding site [chemical binding]; other site 1042878014767 Switch I region; other site 1042878014768 G2 box; other site 1042878014769 Switch II region; other site 1042878014770 G3 box; other site 1042878014771 G4 box; other site 1042878014772 G5 box; other site 1042878014773 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1042878014774 G1 box; other site 1042878014775 GTP/Mg2+ binding site [chemical binding]; other site 1042878014776 Switch I region; other site 1042878014777 G2 box; other site 1042878014778 G3 box; other site 1042878014779 Switch II region; other site 1042878014780 G4 box; other site 1042878014781 G5 box; other site 1042878014782 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1042878014783 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1042878014784 Trp docking motif [polypeptide binding]; other site 1042878014785 active site 1042878014786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1042878014787 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1042878014788 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1042878014789 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 1042878014790 dimer interface [polypeptide binding]; other site 1042878014791 motif 1; other site 1042878014792 active site 1042878014793 motif 2; other site 1042878014794 motif 3; other site 1042878014795 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 1042878014796 anticodon binding site; other site 1042878014797 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1042878014798 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1042878014799 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1042878014800 Helix-turn-helix domain; Region: HTH_25; pfam13413 1042878014801 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1042878014802 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 1042878014803 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042878014804 binding surface 1042878014805 TPR motif; other site 1042878014806 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042878014807 binding surface 1042878014808 TPR motif; other site 1042878014809 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1042878014810 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878014811 FeS/SAM binding site; other site 1042878014812 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 1042878014813 active site 1042878014814 multimer interface [polypeptide binding]; other site 1042878014815 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1042878014816 YccA-like proteins; Region: YccA_like; cd10433 1042878014817 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1042878014818 TRAM domain; Region: TRAM; cl01282 1042878014819 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1042878014820 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878014821 S-adenosylmethionine binding site [chemical binding]; other site 1042878014822 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1042878014823 putative catalytic site [active] 1042878014824 putative metal binding site [ion binding]; other site 1042878014825 putative phosphate binding site [ion binding]; other site 1042878014826 putative catalytic site [active] 1042878014827 putative phosphate binding site [ion binding]; other site 1042878014828 putative metal binding site [ion binding]; other site 1042878014829 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 1042878014830 active site 1042878014831 catalytic site [active] 1042878014832 substrate binding site [chemical binding]; other site 1042878014833 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 1042878014834 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1042878014835 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1042878014836 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878014837 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1042878014838 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042878014839 DNA binding residues [nucleotide binding] 1042878014840 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1042878014841 Peptidase family M23; Region: Peptidase_M23; pfam01551 1042878014842 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1042878014843 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1042878014844 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1042878014845 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042878014846 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1042878014847 NAD(P) binding site [chemical binding]; other site 1042878014848 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878014849 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878014850 trimer interface [polypeptide binding]; other site 1042878014851 eyelet of channel; other site 1042878014852 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1042878014853 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878014854 active site 1042878014855 phosphorylation site [posttranslational modification] 1042878014856 intermolecular recognition site; other site 1042878014857 dimerization interface [polypeptide binding]; other site 1042878014858 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878014859 DNA binding site [nucleotide binding] 1042878014860 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1042878014861 HAMP domain; Region: HAMP; pfam00672 1042878014862 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878014863 dimer interface [polypeptide binding]; other site 1042878014864 phosphorylation site [posttranslational modification] 1042878014865 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878014866 ATP binding site [chemical binding]; other site 1042878014867 Mg2+ binding site [ion binding]; other site 1042878014868 G-X-G motif; other site 1042878014869 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042878014870 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878014871 dimer interface [polypeptide binding]; other site 1042878014872 conserved gate region; other site 1042878014873 putative PBP binding loops; other site 1042878014874 ABC-ATPase subunit interface; other site 1042878014875 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1042878014876 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1042878014877 Walker A/P-loop; other site 1042878014878 ATP binding site [chemical binding]; other site 1042878014879 Q-loop/lid; other site 1042878014880 ABC transporter signature motif; other site 1042878014881 Walker B; other site 1042878014882 D-loop; other site 1042878014883 H-loop/switch region; other site 1042878014884 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1042878014885 NMT1-like family; Region: NMT1_2; pfam13379 1042878014886 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878014887 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1042878014888 active site 1042878014889 catalytic residues [active] 1042878014890 metal binding site [ion binding]; metal-binding site 1042878014891 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878014892 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878014893 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878014894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878014895 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1042878014896 putative dimerization interface [polypeptide binding]; other site 1042878014897 recombination protein RecR; Reviewed; Region: recR; PRK00076 1042878014898 RecR protein; Region: RecR; pfam02132 1042878014899 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 1042878014900 putative active site [active] 1042878014901 putative metal-binding site [ion binding]; other site 1042878014902 tetramer interface [polypeptide binding]; other site 1042878014903 hypothetical protein; Validated; Region: PRK00153 1042878014904 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1042878014905 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878014906 Walker A motif; other site 1042878014907 ATP binding site [chemical binding]; other site 1042878014908 Walker B motif; other site 1042878014909 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1042878014910 arginine finger; other site 1042878014911 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1042878014912 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 1042878014913 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1042878014914 active site 1042878014915 dimer interface [polypeptide binding]; other site 1042878014916 effector binding site; other site 1042878014917 Cys-rich peptide, TIGR04165 family; Region: methano_modCys 1042878014918 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 1042878014919 Family description; Region: UvrD_C_2; pfam13538 1042878014920 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1042878014921 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 1042878014922 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1042878014923 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1042878014924 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1042878014925 catalytic residues [active] 1042878014926 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1042878014927 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1042878014928 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 1042878014929 RNA binding site [nucleotide binding]; other site 1042878014930 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 1042878014931 multimer interface [polypeptide binding]; other site 1042878014932 Walker A motif; other site 1042878014933 ATP binding site [chemical binding]; other site 1042878014934 Walker B motif; other site 1042878014935 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 1042878014936 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1042878014937 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1042878014938 multidrug efflux protein; Reviewed; Region: PRK01766 1042878014939 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1042878014940 cation binding site [ion binding]; other site 1042878014941 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1042878014942 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1042878014943 HIGH motif; other site 1042878014944 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1042878014945 active site 1042878014946 KMSKS motif; other site 1042878014947 hypothetical protein; Provisional; Region: PRK10279 1042878014948 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1042878014949 nucleophile elbow; other site 1042878014950 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1042878014951 NlpC/P60 family; Region: NLPC_P60; pfam00877 1042878014952 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1042878014953 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878014954 Walker A/P-loop; other site 1042878014955 ATP binding site [chemical binding]; other site 1042878014956 Q-loop/lid; other site 1042878014957 ABC transporter signature motif; other site 1042878014958 Walker B; other site 1042878014959 D-loop; other site 1042878014960 H-loop/switch region; other site 1042878014961 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1042878014962 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878014963 Walker A/P-loop; other site 1042878014964 ATP binding site [chemical binding]; other site 1042878014965 Q-loop/lid; other site 1042878014966 ABC transporter signature motif; other site 1042878014967 Walker B; other site 1042878014968 D-loop; other site 1042878014969 H-loop/switch region; other site 1042878014970 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1042878014971 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1042878014972 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878014973 dimer interface [polypeptide binding]; other site 1042878014974 conserved gate region; other site 1042878014975 putative PBP binding loops; other site 1042878014976 ABC-ATPase subunit interface; other site 1042878014977 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1042878014978 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878014979 dimer interface [polypeptide binding]; other site 1042878014980 conserved gate region; other site 1042878014981 putative PBP binding loops; other site 1042878014982 ABC-ATPase subunit interface; other site 1042878014983 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1042878014984 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1042878014985 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 1042878014986 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1042878014987 NAD binding site [chemical binding]; other site 1042878014988 homotetramer interface [polypeptide binding]; other site 1042878014989 homodimer interface [polypeptide binding]; other site 1042878014990 substrate binding site [chemical binding]; other site 1042878014991 active site 1042878014992 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1042878014993 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878014994 putative substrate translocation pore; other site 1042878014995 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1042878014996 Ion channel; Region: Ion_trans_2; pfam07885 1042878014997 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 1042878014998 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1042878014999 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878015000 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878015001 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1042878015002 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1042878015003 Patatin-like phospholipase; Region: Patatin; pfam01734 1042878015004 active site 1042878015005 nucleophile elbow; other site 1042878015006 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042878015007 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878015008 metal binding site [ion binding]; metal-binding site 1042878015009 active site 1042878015010 I-site; other site 1042878015011 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1042878015012 active site 1042878015013 catalytic site [active] 1042878015014 substrate binding site [chemical binding]; other site 1042878015015 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 1042878015016 rRNA binding site [nucleotide binding]; other site 1042878015017 predicted 30S ribosome binding site; other site 1042878015018 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1042878015019 catalytic core [active] 1042878015020 Putative hemolysin [General function prediction only]; Region: COG3176 1042878015021 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1042878015022 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1042878015023 polyphosphate kinase; Provisional; Region: PRK05443 1042878015024 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1042878015025 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1042878015026 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1042878015027 putative domain interface [polypeptide binding]; other site 1042878015028 putative active site [active] 1042878015029 catalytic site [active] 1042878015030 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1042878015031 putative domain interface [polypeptide binding]; other site 1042878015032 putative active site [active] 1042878015033 catalytic site [active] 1042878015034 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1042878015035 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1042878015036 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878015037 dimer interface [polypeptide binding]; other site 1042878015038 phosphorylation site [posttranslational modification] 1042878015039 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878015040 ATP binding site [chemical binding]; other site 1042878015041 Mg2+ binding site [ion binding]; other site 1042878015042 G-X-G motif; other site 1042878015043 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1042878015044 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878015045 active site 1042878015046 phosphorylation site [posttranslational modification] 1042878015047 intermolecular recognition site; other site 1042878015048 dimerization interface [polypeptide binding]; other site 1042878015049 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878015050 DNA binding site [nucleotide binding] 1042878015051 transcriptional regulator PhoU; Provisional; Region: PRK11115 1042878015052 PhoU domain; Region: PhoU; pfam01895 1042878015053 PhoU domain; Region: PhoU; pfam01895 1042878015054 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1042878015055 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1042878015056 Walker A/P-loop; other site 1042878015057 ATP binding site [chemical binding]; other site 1042878015058 Q-loop/lid; other site 1042878015059 ABC transporter signature motif; other site 1042878015060 Walker B; other site 1042878015061 D-loop; other site 1042878015062 H-loop/switch region; other site 1042878015063 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1042878015064 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878015065 dimer interface [polypeptide binding]; other site 1042878015066 conserved gate region; other site 1042878015067 putative PBP binding loops; other site 1042878015068 ABC-ATPase subunit interface; other site 1042878015069 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 1042878015070 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878015071 dimer interface [polypeptide binding]; other site 1042878015072 conserved gate region; other site 1042878015073 putative PBP binding loops; other site 1042878015074 ABC-ATPase subunit interface; other site 1042878015075 PBP superfamily domain; Region: PBP_like_2; cl17296 1042878015076 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1042878015077 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 1042878015078 active site 1042878015079 substrate binding site [chemical binding]; other site 1042878015080 metal binding site [ion binding]; metal-binding site 1042878015081 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1042878015082 dihydropteroate synthase; Region: DHPS; TIGR01496 1042878015083 substrate binding pocket [chemical binding]; other site 1042878015084 dimer interface [polypeptide binding]; other site 1042878015085 inhibitor binding site; inhibition site 1042878015086 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1042878015087 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878015088 Walker A motif; other site 1042878015089 ATP binding site [chemical binding]; other site 1042878015090 Walker B motif; other site 1042878015091 arginine finger; other site 1042878015092 Peptidase family M41; Region: Peptidase_M41; pfam01434 1042878015093 FtsJ-like methyltransferase; Region: FtsJ; cl17430 1042878015094 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1042878015095 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1042878015096 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 1042878015097 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1042878015098 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1042878015099 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1042878015100 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1042878015101 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042878015102 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1042878015103 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1042878015104 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042878015105 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042878015106 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 1042878015107 IMP binding site; other site 1042878015108 dimer interface [polypeptide binding]; other site 1042878015109 interdomain contacts; other site 1042878015110 partial ornithine binding site; other site 1042878015111 leucine export protein LeuE; Provisional; Region: PRK10958 1042878015112 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1042878015113 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1042878015114 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1042878015115 catalytic site [active] 1042878015116 subunit interface [polypeptide binding]; other site 1042878015117 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1042878015118 homotrimer interaction site [polypeptide binding]; other site 1042878015119 putative active site [active] 1042878015120 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1042878015121 active site 1042878015122 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878015123 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1042878015124 acyl-activating enzyme (AAE) consensus motif; other site 1042878015125 AMP binding site [chemical binding]; other site 1042878015126 active site 1042878015127 CoA binding site [chemical binding]; other site 1042878015128 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878015129 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878015130 active site 1042878015131 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042878015132 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878015133 substrate binding site [chemical binding]; other site 1042878015134 oxyanion hole (OAH) forming residues; other site 1042878015135 trimer interface [polypeptide binding]; other site 1042878015136 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878015137 classical (c) SDRs; Region: SDR_c; cd05233 1042878015138 NAD(P) binding site [chemical binding]; other site 1042878015139 active site 1042878015140 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 1042878015141 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042878015142 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1042878015143 active site 1042878015144 FMN binding site [chemical binding]; other site 1042878015145 substrate binding site [chemical binding]; other site 1042878015146 homotetramer interface [polypeptide binding]; other site 1042878015147 catalytic residue [active] 1042878015148 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1042878015149 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878015150 acyl-activating enzyme (AAE) consensus motif; other site 1042878015151 AMP binding site [chemical binding]; other site 1042878015152 active site 1042878015153 CoA binding site [chemical binding]; other site 1042878015154 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1042878015155 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1042878015156 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1042878015157 catalytic residue [active] 1042878015158 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1042878015159 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1042878015160 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1042878015161 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1042878015162 RNA/DNA hybrid binding site [nucleotide binding]; other site 1042878015163 active site 1042878015164 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1042878015165 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 1042878015166 active site 1042878015167 catalytic site [active] 1042878015168 substrate binding site [chemical binding]; other site 1042878015169 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878015170 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1042878015171 catalytic triad [active] 1042878015172 conserved cis-peptide bond; other site 1042878015173 PAS fold; Region: PAS_4; pfam08448 1042878015174 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878015175 putative active site [active] 1042878015176 heme pocket [chemical binding]; other site 1042878015177 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042878015178 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878015179 metal binding site [ion binding]; metal-binding site 1042878015180 active site 1042878015181 I-site; other site 1042878015182 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1042878015183 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1042878015184 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 1042878015185 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1042878015186 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878015187 dimer interface [polypeptide binding]; other site 1042878015188 conserved gate region; other site 1042878015189 putative PBP binding loops; other site 1042878015190 ABC-ATPase subunit interface; other site 1042878015191 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1042878015192 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878015193 putative PBP binding loops; other site 1042878015194 dimer interface [polypeptide binding]; other site 1042878015195 ABC-ATPase subunit interface; other site 1042878015196 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1042878015197 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1042878015198 Walker A/P-loop; other site 1042878015199 ATP binding site [chemical binding]; other site 1042878015200 Q-loop/lid; other site 1042878015201 ABC transporter signature motif; other site 1042878015202 Walker B; other site 1042878015203 D-loop; other site 1042878015204 H-loop/switch region; other site 1042878015205 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1042878015206 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1042878015207 Walker A/P-loop; other site 1042878015208 ATP binding site [chemical binding]; other site 1042878015209 Q-loop/lid; other site 1042878015210 ABC transporter signature motif; other site 1042878015211 Walker B; other site 1042878015212 D-loop; other site 1042878015213 H-loop/switch region; other site 1042878015214 TOBE domain; Region: TOBE_2; pfam08402 1042878015215 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1042878015216 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1042878015217 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1042878015218 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1042878015219 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1042878015220 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1042878015221 putative active site [active] 1042878015222 putative substrate binding site [chemical binding]; other site 1042878015223 putative cosubstrate binding site; other site 1042878015224 catalytic site [active] 1042878015225 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_hydrolase_3; cd03676 1042878015226 nudix motif; other site 1042878015227 glycerol kinase; Provisional; Region: glpK; PRK00047 1042878015228 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1042878015229 N- and C-terminal domain interface [polypeptide binding]; other site 1042878015230 active site 1042878015231 MgATP binding site [chemical binding]; other site 1042878015232 catalytic site [active] 1042878015233 metal binding site [ion binding]; metal-binding site 1042878015234 glycerol binding site [chemical binding]; other site 1042878015235 homotetramer interface [polypeptide binding]; other site 1042878015236 homodimer interface [polypeptide binding]; other site 1042878015237 FBP binding site [chemical binding]; other site 1042878015238 protein IIAGlc interface [polypeptide binding]; other site 1042878015239 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1042878015240 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1042878015241 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 1042878015242 Predicted integral membrane protein [Function unknown]; Region: COG5615 1042878015243 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 1042878015244 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 1042878015245 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1042878015246 dimerization interface [polypeptide binding]; other site 1042878015247 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878015248 metal binding site [ion binding]; metal-binding site 1042878015249 active site 1042878015250 I-site; other site 1042878015251 putative outer membrane lipoprotein; Provisional; Region: PRK09967 1042878015252 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042878015253 ligand binding site [chemical binding]; other site 1042878015254 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1042878015255 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 1042878015256 homodimer interface [polypeptide binding]; other site 1042878015257 substrate-cofactor binding pocket; other site 1042878015258 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878015259 catalytic residue [active] 1042878015260 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1042878015261 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1042878015262 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1042878015263 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 1042878015264 acetyl-CoA synthetase; Provisional; Region: PRK00174 1042878015265 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1042878015266 active site 1042878015267 CoA binding site [chemical binding]; other site 1042878015268 acyl-activating enzyme (AAE) consensus motif; other site 1042878015269 AMP binding site [chemical binding]; other site 1042878015270 acetate binding site [chemical binding]; other site 1042878015271 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 1042878015272 EamA-like transporter family; Region: EamA; pfam00892 1042878015273 hypothetical protein; Provisional; Region: PRK05208 1042878015274 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1042878015275 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1042878015276 glutamate racemase; Provisional; Region: PRK00865 1042878015277 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878015278 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 1042878015279 Walker A motif; other site 1042878015280 ATP binding site [chemical binding]; other site 1042878015281 Walker B motif; other site 1042878015282 arginine finger; other site 1042878015283 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878015284 Walker A motif; other site 1042878015285 ATP binding site [chemical binding]; other site 1042878015286 Walker B motif; other site 1042878015287 arginine finger; other site 1042878015288 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1042878015289 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1042878015290 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1042878015291 TolR protein; Region: tolR; TIGR02801 1042878015292 Hemin uptake protein hemP; Region: hemP; pfam10636 1042878015293 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1042878015294 Predicted membrane protein [Function unknown]; Region: COG2855 1042878015295 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1042878015296 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878015297 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 1042878015298 putative dimerization interface [polypeptide binding]; other site 1042878015299 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1042878015300 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1042878015301 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1042878015302 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1042878015303 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1042878015304 GIY-YIG motif/motif A; other site 1042878015305 active site 1042878015306 catalytic site [active] 1042878015307 putative DNA binding site [nucleotide binding]; other site 1042878015308 metal binding site [ion binding]; metal-binding site 1042878015309 UvrB/uvrC motif; Region: UVR; pfam02151 1042878015310 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1042878015311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 1042878015312 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 1042878015313 elongation factor P; Validated; Region: PRK00529 1042878015314 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1042878015315 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 1042878015316 RNA binding site [nucleotide binding]; other site 1042878015317 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 1042878015318 RNA binding site [nucleotide binding]; other site 1042878015319 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1042878015320 beta-hexosaminidase; Provisional; Region: PRK05337 1042878015321 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1042878015322 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 1042878015323 active site 1042878015324 hydrophilic channel; other site 1042878015325 dimerization interface [polypeptide binding]; other site 1042878015326 catalytic residues [active] 1042878015327 active site lid [active] 1042878015328 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1042878015329 Recombination protein O N terminal; Region: RecO_N; pfam11967 1042878015330 Recombination protein O C terminal; Region: RecO_C; pfam02565 1042878015331 GTPase Era; Reviewed; Region: era; PRK00089 1042878015332 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1042878015333 G1 box; other site 1042878015334 GTP/Mg2+ binding site [chemical binding]; other site 1042878015335 Switch I region; other site 1042878015336 G2 box; other site 1042878015337 Switch II region; other site 1042878015338 G3 box; other site 1042878015339 G4 box; other site 1042878015340 G5 box; other site 1042878015341 KH domain; Region: KH_2; pfam07650 1042878015342 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 1042878015343 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 1042878015344 dimerization interface [polypeptide binding]; other site 1042878015345 active site 1042878015346 metal binding site [ion binding]; metal-binding site 1042878015347 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 1042878015348 signal peptidase I; Provisional; Region: PRK10861 1042878015349 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1042878015350 Catalytic site [active] 1042878015351 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1042878015352 GTP-binding protein LepA; Provisional; Region: PRK05433 1042878015353 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1042878015354 G1 box; other site 1042878015355 putative GEF interaction site [polypeptide binding]; other site 1042878015356 GTP/Mg2+ binding site [chemical binding]; other site 1042878015357 Switch I region; other site 1042878015358 G2 box; other site 1042878015359 G3 box; other site 1042878015360 Switch II region; other site 1042878015361 G4 box; other site 1042878015362 G5 box; other site 1042878015363 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 1042878015364 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 1042878015365 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1042878015366 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1042878015367 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1042878015368 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1042878015369 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1042878015370 protein binding site [polypeptide binding]; other site 1042878015371 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1042878015372 protein binding site [polypeptide binding]; other site 1042878015373 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1042878015374 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1042878015375 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1042878015376 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1042878015377 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 1042878015378 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878015379 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042878015380 DNA binding residues [nucleotide binding] 1042878015381 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1042878015382 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1042878015383 dimer interface [polypeptide binding]; other site 1042878015384 active site 1042878015385 acyl carrier protein; Provisional; Region: acpP; PRK00982 1042878015386 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042878015387 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1042878015388 NAD(P) binding site [chemical binding]; other site 1042878015389 homotetramer interface [polypeptide binding]; other site 1042878015390 homodimer interface [polypeptide binding]; other site 1042878015391 active site 1042878015392 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1042878015393 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1042878015394 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1042878015395 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 1042878015396 dimer interface [polypeptide binding]; other site 1042878015397 active site 1042878015398 CoA binding pocket [chemical binding]; other site 1042878015399 putative phosphate acyltransferase; Provisional; Region: PRK05331 1042878015400 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1042878015401 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1042878015402 Maf-like protein; Region: Maf; pfam02545 1042878015403 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 1042878015404 active site 1042878015405 dimer interface [polypeptide binding]; other site 1042878015406 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 1042878015407 putative SAM binding site [chemical binding]; other site 1042878015408 homodimer interface [polypeptide binding]; other site 1042878015409 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1042878015410 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1042878015411 tandem repeat interface [polypeptide binding]; other site 1042878015412 oligomer interface [polypeptide binding]; other site 1042878015413 active site residues [active] 1042878015414 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 1042878015415 iron-sulfur cluster [ion binding]; other site 1042878015416 [2Fe-2S] cluster binding site [ion binding]; other site 1042878015417 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1042878015418 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042878015419 motif II; other site 1042878015420 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1042878015421 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1042878015422 RNA binding surface [nucleotide binding]; other site 1042878015423 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1042878015424 active site 1042878015425 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1042878015426 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 1042878015427 homodimer interface [polypeptide binding]; other site 1042878015428 oligonucleotide binding site [chemical binding]; other site 1042878015429 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1042878015430 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878015431 FeS/SAM binding site; other site 1042878015432 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1042878015433 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1042878015434 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1042878015435 GTP binding site; other site 1042878015436 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 1042878015437 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 1042878015438 dimer interface [polypeptide binding]; other site 1042878015439 putative functional site; other site 1042878015440 putative MPT binding site; other site 1042878015441 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1042878015442 RmuC family; Region: RmuC; pfam02646 1042878015443 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1042878015444 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1042878015445 dimerization interface [polypeptide binding]; other site 1042878015446 ligand binding site [chemical binding]; other site 1042878015447 NADP binding site [chemical binding]; other site 1042878015448 catalytic site [active] 1042878015449 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1042878015450 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1042878015451 transmembrane helices; other site 1042878015452 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1042878015453 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1042878015454 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 1042878015455 active site 1042878015456 Ferredoxin [Energy production and conversion]; Region: COG1146 1042878015457 4Fe-4S binding domain; Region: Fer4; cl02805 1042878015458 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1042878015459 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1042878015460 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878015461 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878015462 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1042878015463 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878015464 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878015465 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878015466 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878015467 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878015468 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1042878015469 active site 1042878015470 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878015471 Cupin domain; Region: Cupin_2; pfam07883 1042878015472 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1042878015473 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878015474 active site 1042878015475 phosphorylation site [posttranslational modification] 1042878015476 intermolecular recognition site; other site 1042878015477 dimerization interface [polypeptide binding]; other site 1042878015478 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878015479 DNA binding site [nucleotide binding] 1042878015480 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1042878015481 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1042878015482 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 1042878015483 Ligand Binding Site [chemical binding]; other site 1042878015484 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1042878015485 GAF domain; Region: GAF_3; pfam13492 1042878015486 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878015487 dimer interface [polypeptide binding]; other site 1042878015488 phosphorylation site [posttranslational modification] 1042878015489 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878015490 ATP binding site [chemical binding]; other site 1042878015491 Mg2+ binding site [ion binding]; other site 1042878015492 G-X-G motif; other site 1042878015493 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1042878015494 nodulation ABC transporter NodI; Provisional; Region: PRK13537 1042878015495 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878015496 Walker A/P-loop; other site 1042878015497 ATP binding site [chemical binding]; other site 1042878015498 Q-loop/lid; other site 1042878015499 ABC transporter signature motif; other site 1042878015500 Walker B; other site 1042878015501 D-loop; other site 1042878015502 H-loop/switch region; other site 1042878015503 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1042878015504 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1042878015505 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 1042878015506 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1042878015507 homodimer interface [polypeptide binding]; other site 1042878015508 substrate-cofactor binding pocket; other site 1042878015509 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878015510 catalytic residue [active] 1042878015511 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1042878015512 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 1042878015513 active site 1042878015514 tetramer interface [polypeptide binding]; other site 1042878015515 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042878015516 active site 1042878015517 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1042878015518 Colicin V production protein; Region: Colicin_V; pfam02674 1042878015519 Sporulation related domain; Region: SPOR; pfam05036 1042878015520 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1042878015521 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042878015522 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1042878015523 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1042878015524 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1042878015525 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1042878015526 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 1042878015527 substrate binding site [chemical binding]; other site 1042878015528 active site 1042878015529 catalytic residues [active] 1042878015530 heterodimer interface [polypeptide binding]; other site 1042878015531 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1042878015532 DNA methylase; Region: N6_N4_Mtase; pfam01555 1042878015533 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1042878015534 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 1042878015535 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878015536 catalytic residue [active] 1042878015537 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 1042878015538 active site 1042878015539 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1042878015540 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1042878015541 dimerization interface 3.5A [polypeptide binding]; other site 1042878015542 active site 1042878015543 FimV N-terminal domain; Region: FimV_core; TIGR03505 1042878015544 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1042878015545 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1042878015546 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1042878015547 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1042878015548 tartrate dehydrogenase; Region: TTC; TIGR02089 1042878015549 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1042878015550 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 1042878015551 substrate binding site [chemical binding]; other site 1042878015552 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1042878015553 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1042878015554 substrate binding site [chemical binding]; other site 1042878015555 ligand binding site [chemical binding]; other site 1042878015556 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878015557 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878015558 Walker A/P-loop; other site 1042878015559 ATP binding site [chemical binding]; other site 1042878015560 Q-loop/lid; other site 1042878015561 ABC transporter signature motif; other site 1042878015562 Walker B; other site 1042878015563 D-loop; other site 1042878015564 H-loop/switch region; other site 1042878015565 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1042878015566 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878015567 Walker A/P-loop; other site 1042878015568 ATP binding site [chemical binding]; other site 1042878015569 Q-loop/lid; other site 1042878015570 ABC transporter signature motif; other site 1042878015571 Walker B; other site 1042878015572 D-loop; other site 1042878015573 H-loop/switch region; other site 1042878015574 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1042878015575 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1042878015576 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878015577 TM-ABC transporter signature motif; other site 1042878015578 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878015579 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878015580 TM-ABC transporter signature motif; other site 1042878015581 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1042878015582 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1042878015583 dimerization interface [polypeptide binding]; other site 1042878015584 ligand binding site [chemical binding]; other site 1042878015585 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 1042878015586 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1042878015587 dimer interface [polypeptide binding]; other site 1042878015588 active site 1042878015589 citrylCoA binding site [chemical binding]; other site 1042878015590 NADH binding [chemical binding]; other site 1042878015591 cationic pore residues; other site 1042878015592 oxalacetate/citrate binding site [chemical binding]; other site 1042878015593 coenzyme A binding site [chemical binding]; other site 1042878015594 catalytic triad [active] 1042878015595 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 1042878015596 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1042878015597 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1042878015598 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 1042878015599 L-aspartate oxidase; Provisional; Region: PRK06175 1042878015600 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1042878015601 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 1042878015602 SdhC subunit interface [polypeptide binding]; other site 1042878015603 proximal heme binding site [chemical binding]; other site 1042878015604 cardiolipin binding site; other site 1042878015605 Iron-sulfur protein interface; other site 1042878015606 proximal quinone binding site [chemical binding]; other site 1042878015607 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 1042878015608 Iron-sulfur protein interface; other site 1042878015609 proximal quinone binding site [chemical binding]; other site 1042878015610 SdhD (CybS) interface [polypeptide binding]; other site 1042878015611 proximal heme binding site [chemical binding]; other site 1042878015612 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1042878015613 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878015614 DNA-binding site [nucleotide binding]; DNA binding site 1042878015615 UTRA domain; Region: UTRA; pfam07702 1042878015616 malate dehydrogenase; Provisional; Region: PRK05442 1042878015617 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 1042878015618 NAD(P) binding site [chemical binding]; other site 1042878015619 dimer interface [polypeptide binding]; other site 1042878015620 malate binding site [chemical binding]; other site 1042878015621 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1042878015622 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1042878015623 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 1042878015624 dimer interface [polypeptide binding]; other site 1042878015625 active site 1042878015626 citrylCoA binding site [chemical binding]; other site 1042878015627 oxalacetate/citrate binding site [chemical binding]; other site 1042878015628 coenzyme A binding site [chemical binding]; other site 1042878015629 catalytic triad [active] 1042878015630 aconitate hydratase; Provisional; Region: acnA; PRK12881 1042878015631 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1042878015632 substrate binding site [chemical binding]; other site 1042878015633 ligand binding site [chemical binding]; other site 1042878015634 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 1042878015635 substrate binding site [chemical binding]; other site 1042878015636 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 1042878015637 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878015638 S-adenosylmethionine binding site [chemical binding]; other site 1042878015639 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1042878015640 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1042878015641 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1042878015642 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 1042878015643 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1042878015644 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1042878015645 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 1042878015646 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878015647 catalytic residue [active] 1042878015648 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1042878015649 dimerization domain swap beta strand [polypeptide binding]; other site 1042878015650 regulatory protein interface [polypeptide binding]; other site 1042878015651 active site 1042878015652 regulatory phosphorylation site [posttranslational modification]; other site 1042878015653 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878015654 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1042878015655 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1042878015656 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1042878015657 Ligand Binding Site [chemical binding]; other site 1042878015658 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878015659 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878015660 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1042878015661 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042878015662 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1042878015663 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1042878015664 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1042878015665 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1042878015666 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042878015667 MULE transposase domain; Region: MULE; pfam10551 1042878015668 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1042878015669 heat shock protein 90; Provisional; Region: PRK05218 1042878015670 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878015671 ATP binding site [chemical binding]; other site 1042878015672 Mg2+ binding site [ion binding]; other site 1042878015673 G-X-G motif; other site 1042878015674 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878015675 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878015676 DNA-binding site [nucleotide binding]; DNA binding site 1042878015677 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878015678 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878015679 homodimer interface [polypeptide binding]; other site 1042878015680 catalytic residue [active] 1042878015681 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1042878015682 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1042878015683 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1042878015684 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1042878015685 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042878015686 EamA-like transporter family; Region: EamA; pfam00892 1042878015687 EamA-like transporter family; Region: EamA; pfam00892 1042878015688 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1042878015689 homotrimer interaction site [polypeptide binding]; other site 1042878015690 putative active site [active] 1042878015691 Cupin domain; Region: Cupin_2; cl17218 1042878015692 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1042878015693 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878015694 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878015695 homodimer interface [polypeptide binding]; other site 1042878015696 catalytic residue [active] 1042878015697 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042878015698 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 1042878015699 putative C-terminal domain interface [polypeptide binding]; other site 1042878015700 putative GSH binding site (G-site) [chemical binding]; other site 1042878015701 putative dimer interface [polypeptide binding]; other site 1042878015702 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1042878015703 putative N-terminal domain interface [polypeptide binding]; other site 1042878015704 putative dimer interface [polypeptide binding]; other site 1042878015705 putative substrate binding pocket (H-site) [chemical binding]; other site 1042878015706 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1042878015707 L-lactate permease; Region: Lactate_perm; cl00701 1042878015708 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1042878015709 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1042878015710 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042878015711 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878015712 Walker A/P-loop; other site 1042878015713 ATP binding site [chemical binding]; other site 1042878015714 Q-loop/lid; other site 1042878015715 ABC transporter signature motif; other site 1042878015716 Walker B; other site 1042878015717 D-loop; other site 1042878015718 H-loop/switch region; other site 1042878015719 Chromate transporter; Region: Chromate_transp; pfam02417 1042878015720 Chromate transporter; Region: Chromate_transp; pfam02417 1042878015721 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1042878015722 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1042878015723 CAP-like domain; other site 1042878015724 active site 1042878015725 primary dimer interface [polypeptide binding]; other site 1042878015726 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1042878015727 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1042878015728 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1042878015729 catalytic residue [active] 1042878015730 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1042878015731 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878015732 ATP binding site [chemical binding]; other site 1042878015733 Mg2+ binding site [ion binding]; other site 1042878015734 G-X-G motif; other site 1042878015735 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 1042878015736 anchoring element; other site 1042878015737 dimer interface [polypeptide binding]; other site 1042878015738 ATP binding site [chemical binding]; other site 1042878015739 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1042878015740 active site 1042878015741 metal binding site [ion binding]; metal-binding site 1042878015742 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1042878015743 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878015744 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878015745 putative substrate translocation pore; other site 1042878015746 ABC transporter ATPase component; Reviewed; Region: PRK11147 1042878015747 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1042878015748 Walker A/P-loop; other site 1042878015749 ATP binding site [chemical binding]; other site 1042878015750 Q-loop/lid; other site 1042878015751 ABC transporter signature motif; other site 1042878015752 Walker B; other site 1042878015753 D-loop; other site 1042878015754 H-loop/switch region; other site 1042878015755 ABC transporter; Region: ABC_tran_2; pfam12848 1042878015756 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042878015757 benzoate transporter; Region: benE; TIGR00843 1042878015758 Benzoate membrane transport protein; Region: BenE; pfam03594 1042878015759 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1042878015760 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 1042878015761 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1042878015762 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1042878015763 putative active site [active] 1042878015764 putative metal binding site [ion binding]; other site 1042878015765 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042878015766 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1042878015767 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 1042878015768 potential frameshift: common BLAST hit: gi|73542051|ref|YP_296571.1| Phage integrase 1042878015769 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878015770 active site 1042878015771 DNA binding site [nucleotide binding] 1042878015772 Int/Topo IB signature motif; other site 1042878015773 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878015774 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878015775 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 1042878015776 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 1042878015777 Protein phosphatase 2C; Region: PP2C; pfam00481 1042878015778 active site 1042878015779 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 1042878015780 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878015781 Walker A motif; other site 1042878015782 ATP binding site [chemical binding]; other site 1042878015783 Walker B motif; other site 1042878015784 arginine finger; other site 1042878015785 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042878015786 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042878015787 ligand binding site [chemical binding]; other site 1042878015788 flexible hinge region; other site 1042878015789 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042878015790 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042878015791 ligand binding site [chemical binding]; other site 1042878015792 flexible hinge region; other site 1042878015793 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 1042878015794 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1042878015795 putative active site [active] 1042878015796 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042878015797 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878015798 Walker A/P-loop; other site 1042878015799 ATP binding site [chemical binding]; other site 1042878015800 Q-loop/lid; other site 1042878015801 ABC transporter signature motif; other site 1042878015802 Walker B; other site 1042878015803 D-loop; other site 1042878015804 H-loop/switch region; other site 1042878015805 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1042878015806 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1042878015807 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1042878015808 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878015809 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878015810 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1042878015811 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1042878015812 phosphopeptide binding site; other site 1042878015813 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1042878015814 phosphopeptide binding site; other site 1042878015815 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1042878015816 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042878015817 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 1042878015818 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 1042878015819 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1042878015820 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1042878015821 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1042878015822 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1042878015823 active site 1042878015824 ATP binding site [chemical binding]; other site 1042878015825 substrate binding site [chemical binding]; other site 1042878015826 activation loop (A-loop); other site 1042878015827 helicase 45; Provisional; Region: PTZ00424 1042878015828 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1042878015829 ATP binding site [chemical binding]; other site 1042878015830 Mg++ binding site [ion binding]; other site 1042878015831 motif III; other site 1042878015832 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042878015833 nucleotide binding region [chemical binding]; other site 1042878015834 ATP-binding site [chemical binding]; other site 1042878015835 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 1042878015836 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1042878015837 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 1042878015838 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 1042878015839 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1042878015840 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1042878015841 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 1042878015842 dimerization interface [polypeptide binding]; other site 1042878015843 active site 1042878015844 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1042878015845 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1042878015846 folate binding site [chemical binding]; other site 1042878015847 NADP+ binding site [chemical binding]; other site 1042878015848 peptidase PmbA; Provisional; Region: PRK11040 1042878015849 hypothetical protein; Provisional; Region: PRK05255 1042878015850 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 1042878015851 MPT binding site; other site 1042878015852 trimer interface [polypeptide binding]; other site 1042878015853 Membrane transport protein; Region: Mem_trans; cl09117 1042878015854 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1042878015855 catalytic site [active] 1042878015856 putative active site [active] 1042878015857 putative substrate binding site [chemical binding]; other site 1042878015858 dimer interface [polypeptide binding]; other site 1042878015859 Peptidase family M48; Region: Peptidase_M48; pfam01435 1042878015860 GTPase RsgA; Reviewed; Region: PRK00098 1042878015861 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 1042878015862 RNA binding site [nucleotide binding]; other site 1042878015863 homodimer interface [polypeptide binding]; other site 1042878015864 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1042878015865 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1042878015866 GTP/Mg2+ binding site [chemical binding]; other site 1042878015867 G4 box; other site 1042878015868 G5 box; other site 1042878015869 G1 box; other site 1042878015870 Switch I region; other site 1042878015871 G2 box; other site 1042878015872 G3 box; other site 1042878015873 Switch II region; other site 1042878015874 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1042878015875 CobD/CbiB family protein; Provisional; Region: PRK07630 1042878015876 Pirin-related protein [General function prediction only]; Region: COG1741 1042878015877 Pirin; Region: Pirin; pfam02678 1042878015878 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1042878015879 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878015880 The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold; Region: PBP2_HupR; cd08431 1042878015881 putative dimerization interface [polypeptide binding]; other site 1042878015882 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 1042878015883 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1042878015884 active site 1042878015885 HIGH motif; other site 1042878015886 nucleotide binding site [chemical binding]; other site 1042878015887 active site 1042878015888 KMSKS motif; other site 1042878015889 helicase 45; Provisional; Region: PTZ00424 1042878015890 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1042878015891 ATP binding site [chemical binding]; other site 1042878015892 Mg++ binding site [ion binding]; other site 1042878015893 motif III; other site 1042878015894 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042878015895 nucleotide binding region [chemical binding]; other site 1042878015896 ATP-binding site [chemical binding]; other site 1042878015897 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1042878015898 Coenzyme A transferase; Region: CoA_trans; smart00882 1042878015899 Coenzyme A transferase; Region: CoA_trans; cl17247 1042878015900 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 1042878015901 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1042878015902 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1042878015903 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1042878015904 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1042878015905 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1042878015906 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1042878015907 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878015908 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1042878015909 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042878015910 DNA binding residues [nucleotide binding] 1042878015911 DNA primase; Validated; Region: dnaG; PRK05667 1042878015912 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1042878015913 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1042878015914 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 1042878015915 active site 1042878015916 metal binding site [ion binding]; metal-binding site 1042878015917 interdomain interaction site; other site 1042878015918 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1042878015919 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1042878015920 Yqey-like protein; Region: YqeY; pfam09424 1042878015921 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1042878015922 HI0933-like protein; Region: HI0933_like; pfam03486 1042878015923 UGMP family protein; Validated; Region: PRK09604 1042878015924 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1042878015925 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1042878015926 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1042878015927 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 1042878015928 TPP-binding site; other site 1042878015929 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1042878015930 PYR/PP interface [polypeptide binding]; other site 1042878015931 dimer interface [polypeptide binding]; other site 1042878015932 TPP binding site [chemical binding]; other site 1042878015933 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1042878015934 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1042878015935 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1042878015936 substrate binding pocket [chemical binding]; other site 1042878015937 chain length determination region; other site 1042878015938 substrate-Mg2+ binding site; other site 1042878015939 catalytic residues [active] 1042878015940 aspartate-rich region 1; other site 1042878015941 active site lid residues [active] 1042878015942 aspartate-rich region 2; other site 1042878015943 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1042878015944 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042878015945 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1042878015946 [2Fe-2S] cluster binding site [ion binding]; other site 1042878015947 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1042878015948 alpha subunit interface [polypeptide binding]; other site 1042878015949 active site 1042878015950 substrate binding site [chemical binding]; other site 1042878015951 Fe binding site [ion binding]; other site 1042878015952 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042878015953 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1042878015954 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1042878015955 active site residue [active] 1042878015956 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1042878015957 active site residue [active] 1042878015958 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1042878015959 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1042878015960 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042878015961 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1042878015962 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878015963 DNA polymerase I; Provisional; Region: PRK05755 1042878015964 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1042878015965 active site 1042878015966 metal binding site 1 [ion binding]; metal-binding site 1042878015967 putative 5' ssDNA interaction site; other site 1042878015968 metal binding site 3; metal-binding site 1042878015969 metal binding site 2 [ion binding]; metal-binding site 1042878015970 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1042878015971 putative DNA binding site [nucleotide binding]; other site 1042878015972 putative metal binding site [ion binding]; other site 1042878015973 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 1042878015974 active site 1042878015975 catalytic site [active] 1042878015976 substrate binding site [chemical binding]; other site 1042878015977 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1042878015978 active site 1042878015979 DNA binding site [nucleotide binding] 1042878015980 catalytic site [active] 1042878015981 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1042878015982 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1042878015983 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 1042878015984 putative active site [active] 1042878015985 putative substrate binding site [chemical binding]; other site 1042878015986 ATP binding site [chemical binding]; other site 1042878015987 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878015988 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1042878015989 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878015990 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1042878015991 putative catalytic cysteine [active] 1042878015992 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1042878015993 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878015994 acyl-activating enzyme (AAE) consensus motif; other site 1042878015995 Subfamily of fatty acid CoA ligase (FACL) similar to Fum10p of Gibberella moniliformis; Region: FACL_fum10p_like; cd05926 1042878015996 putative AMP binding site [chemical binding]; other site 1042878015997 putative active site [active] 1042878015998 acyl-activating enzyme (AAE) consensus motif; other site 1042878015999 putative CoA binding site [chemical binding]; other site 1042878016000 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878016001 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878016002 putative substrate translocation pore; other site 1042878016003 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1042878016004 Part of AAA domain; Region: AAA_19; pfam13245 1042878016005 Family description; Region: UvrD_C_2; pfam13538 1042878016006 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1042878016007 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1042878016008 active site 1042878016009 HIGH motif; other site 1042878016010 nucleotide binding site [chemical binding]; other site 1042878016011 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1042878016012 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1042878016013 active site 1042878016014 KMSKS motif; other site 1042878016015 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1042878016016 tRNA binding surface [nucleotide binding]; other site 1042878016017 anticodon binding site; other site 1042878016018 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1042878016019 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1042878016020 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1042878016021 active site 1042878016022 tetramer interface; other site 1042878016023 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1042878016024 CPxP motif; other site 1042878016025 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1042878016026 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1042878016027 nudix motif; other site 1042878016028 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1042878016029 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 1042878016030 tetramer interface [polypeptide binding]; other site 1042878016031 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878016032 catalytic residue [active] 1042878016033 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 1042878016034 active site 1 [active] 1042878016035 dimer interface [polypeptide binding]; other site 1042878016036 hexamer interface [polypeptide binding]; other site 1042878016037 active site 2 [active] 1042878016038 aldolase II superfamily protein; Provisional; Region: PRK07044 1042878016039 intersubunit interface [polypeptide binding]; other site 1042878016040 active site 1042878016041 Zn2+ binding site [ion binding]; other site 1042878016042 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 1042878016043 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878016044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878016045 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878016046 dimerization interface [polypeptide binding]; other site 1042878016047 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1042878016048 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1042878016049 dimer interface [polypeptide binding]; other site 1042878016050 active site residues [active] 1042878016051 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1042878016052 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1042878016053 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1042878016054 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1042878016055 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 1042878016056 motif 1; other site 1042878016057 active site 1042878016058 motif 2; other site 1042878016059 motif 3; other site 1042878016060 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1042878016061 DHHA1 domain; Region: DHHA1; pfam02272 1042878016062 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878016063 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878016064 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 1042878016065 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878016066 potassium/proton antiporter; Reviewed; Region: PRK05326 1042878016067 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1042878016068 TrkA-C domain; Region: TrkA_C; pfam02080 1042878016069 Transporter associated domain; Region: CorC_HlyC; smart01091 1042878016070 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1042878016071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1042878016072 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 1042878016073 putative deacylase active site [active] 1042878016074 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1042878016075 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1042878016076 dimer interface [polypeptide binding]; other site 1042878016077 active site 1042878016078 heme binding site [chemical binding]; other site 1042878016079 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1042878016080 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878016081 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878016082 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878016083 dimerization interface [polypeptide binding]; other site 1042878016084 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878016085 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1042878016086 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1042878016087 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1042878016088 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 1042878016089 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878016090 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878016091 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1042878016092 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1042878016093 active site 1042878016094 HIGH motif; other site 1042878016095 nucleotide binding site [chemical binding]; other site 1042878016096 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1042878016097 KMSKS motif; other site 1042878016098 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1042878016099 S4 domain; Region: S4_2; pfam13275 1042878016100 MAPEG family; Region: MAPEG; cl09190 1042878016101 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1042878016102 YaeQ protein; Region: YaeQ; pfam07152 1042878016103 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1042878016104 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1042878016105 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1042878016106 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1042878016107 putative active site pocket [active] 1042878016108 dimerization interface [polypeptide binding]; other site 1042878016109 putative catalytic residue [active] 1042878016110 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1042878016111 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1042878016112 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1042878016113 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 1042878016114 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878016115 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 1042878016116 acyl-activating enzyme (AAE) consensus motif; other site 1042878016117 putative AMP binding site [chemical binding]; other site 1042878016118 putative active site [active] 1042878016119 putative CoA binding site [chemical binding]; other site 1042878016120 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1042878016121 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1042878016122 catalytic residues [active] 1042878016123 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1042878016124 Hemerythrin; Region: Hemerythrin; cd12107 1042878016125 AAA domain; Region: AAA_33; pfam13671 1042878016126 RNA helicase; Region: RNA_helicase; pfam00910 1042878016127 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1042878016128 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 1042878016129 putative ATP binding site [chemical binding]; other site 1042878016130 putative substrate interface [chemical binding]; other site 1042878016131 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1042878016132 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1042878016133 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878016134 putative substrate translocation pore; other site 1042878016135 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878016136 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1042878016137 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1042878016138 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1042878016139 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1042878016140 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878016141 S-adenosylmethionine binding site [chemical binding]; other site 1042878016142 Protein of unknown function DUF72; Region: DUF72; pfam01904 1042878016143 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1042878016144 CoA binding domain; Region: CoA_binding_2; pfam13380 1042878016145 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1042878016146 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1042878016147 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878016148 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878016149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878016150 NAD(P) binding site [chemical binding]; other site 1042878016151 active site 1042878016152 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878016153 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878016154 active site 1042878016155 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878016156 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1042878016157 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1042878016158 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042878016159 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042878016160 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1042878016161 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1042878016162 carboxyltransferase (CT) interaction site; other site 1042878016163 biotinylation site [posttranslational modification]; other site 1042878016164 enoyl-CoA hydratase; Provisional; Region: PRK05995 1042878016165 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878016166 substrate binding site [chemical binding]; other site 1042878016167 oxyanion hole (OAH) forming residues; other site 1042878016168 trimer interface [polypeptide binding]; other site 1042878016169 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878016170 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878016171 active site 1042878016172 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1042878016173 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1042878016174 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1042878016175 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878016176 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1042878016177 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1042878016178 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1042878016179 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878016180 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1042878016181 acyl-activating enzyme (AAE) consensus motif; other site 1042878016182 acyl-activating enzyme (AAE) consensus motif; other site 1042878016183 putative AMP binding site [chemical binding]; other site 1042878016184 putative active site [active] 1042878016185 putative CoA binding site [chemical binding]; other site 1042878016186 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878016187 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1042878016188 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1042878016189 active site 1042878016190 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878016191 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1042878016192 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878016193 MarR family; Region: MarR_2; pfam12802 1042878016194 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042878016195 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878016196 putative DNA binding site [nucleotide binding]; other site 1042878016197 putative Zn2+ binding site [ion binding]; other site 1042878016198 AsnC family; Region: AsnC_trans_reg; pfam01037 1042878016199 arylformamidase; Region: trp_arylform; TIGR03035 1042878016200 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 1042878016201 kynureninase; Region: kynureninase; TIGR01814 1042878016202 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878016203 catalytic residue [active] 1042878016204 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 1042878016205 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878016206 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878016207 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1042878016208 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878016209 FAD binding site [chemical binding]; other site 1042878016210 substrate binding pocket [chemical binding]; other site 1042878016211 catalytic base [active] 1042878016212 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1042878016213 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 1042878016214 dimer interface [polypeptide binding]; other site 1042878016215 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1042878016216 catalytic triad [active] 1042878016217 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 1042878016218 Predicted membrane protein [Function unknown]; Region: COG5393 1042878016219 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 1042878016220 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878016221 PAS fold; Region: PAS_3; pfam08447 1042878016222 putative active site [active] 1042878016223 heme pocket [chemical binding]; other site 1042878016224 PAS fold; Region: PAS; pfam00989 1042878016225 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878016226 putative active site [active] 1042878016227 heme pocket [chemical binding]; other site 1042878016228 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042878016229 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042878016230 metal binding site [ion binding]; metal-binding site 1042878016231 active site 1042878016232 I-site; other site 1042878016233 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1042878016234 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878016235 active site 1042878016236 Int/Topo IB signature motif; other site 1042878016237 DNA binding site [nucleotide binding] 1042878016238 Helix-turn-helix domain; Region: HTH_17; pfam12728 1042878016239 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1042878016240 Sel1-like repeats; Region: SEL1; smart00671 1042878016241 Predicted transporter component [General function prediction only]; Region: COG2391 1042878016242 Sulphur transport; Region: Sulf_transp; pfam04143 1042878016243 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 1042878016244 Ligand Binding Site [chemical binding]; other site 1042878016245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1042878016246 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042878016247 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1042878016248 ligand binding site [chemical binding]; other site 1042878016249 translocation protein TolB; Provisional; Region: tolB; PRK02889 1042878016250 TolB amino-terminal domain; Region: TolB_N; pfam04052 1042878016251 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1042878016252 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1042878016253 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1042878016254 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1042878016255 TolA protein; Region: tolA_full; TIGR02794 1042878016256 TonB C terminal; Region: TonB_2; pfam13103 1042878016257 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1042878016258 TolR protein; Region: tolR; TIGR02801 1042878016259 TolQ protein; Region: tolQ; TIGR02796 1042878016260 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1042878016261 active site 1042878016262 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1042878016263 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 1042878016264 dimer interface [polypeptide binding]; other site 1042878016265 active site 1042878016266 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1042878016267 folate binding site [chemical binding]; other site 1042878016268 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1042878016269 ATP cone domain; Region: ATP-cone; pfam03477 1042878016270 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 1042878016271 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1042878016272 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 1042878016273 PilX N-terminal; Region: PilX_N; pfam14341 1042878016274 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 1042878016275 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1042878016276 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1042878016277 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1042878016278 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1042878016279 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1042878016280 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1042878016281 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 1042878016282 catalytic motif [active] 1042878016283 Zn binding site [ion binding]; other site 1042878016284 RibD C-terminal domain; Region: RibD_C; cl17279 1042878016285 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1042878016286 Lumazine binding domain; Region: Lum_binding; pfam00677 1042878016287 Lumazine binding domain; Region: Lum_binding; pfam00677 1042878016288 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1042878016289 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1042878016290 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1042878016291 dimerization interface [polypeptide binding]; other site 1042878016292 active site 1042878016293 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 1042878016294 homopentamer interface [polypeptide binding]; other site 1042878016295 active site 1042878016296 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1042878016297 putative RNA binding site [nucleotide binding]; other site 1042878016298 aminotransferase; Validated; Region: PRK07337 1042878016299 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878016300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878016301 homodimer interface [polypeptide binding]; other site 1042878016302 catalytic residue [active] 1042878016303 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1042878016304 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1042878016305 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1042878016306 catalytic residue [active] 1042878016307 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1042878016308 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1042878016309 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1042878016310 acyl-activating enzyme (AAE) consensus motif; other site 1042878016311 putative AMP binding site [chemical binding]; other site 1042878016312 putative active site [active] 1042878016313 putative CoA binding site [chemical binding]; other site 1042878016314 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 1042878016315 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042878016316 putative C-terminal domain interface [polypeptide binding]; other site 1042878016317 putative GSH binding site (G-site) [chemical binding]; other site 1042878016318 putative dimer interface [polypeptide binding]; other site 1042878016319 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1042878016320 putative N-terminal domain interface [polypeptide binding]; other site 1042878016321 putative dimer interface [polypeptide binding]; other site 1042878016322 putative substrate binding pocket (H-site) [chemical binding]; other site 1042878016323 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1042878016324 Aldose 1-epimerase, similar to Synechocystis Slr1438; Region: Aldose_epim_Slr1438; cd09025 1042878016325 active site 1042878016326 catalytic residues [active] 1042878016327 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878016328 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878016329 non-specific DNA binding site [nucleotide binding]; other site 1042878016330 salt bridge; other site 1042878016331 sequence-specific DNA binding site [nucleotide binding]; other site 1042878016332 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042878016333 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878016334 putative substrate translocation pore; other site 1042878016335 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 1042878016336 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1042878016337 Putative helicase; Region: TraI_2; pfam07514 1042878016338 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1042878016339 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1042878016340 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1042878016341 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1042878016342 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 1042878016343 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1042878016344 MPN+ (JAMM) motif; other site 1042878016345 Zinc-binding site [ion binding]; other site 1042878016346 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1042878016347 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1042878016348 catalytic residues [active] 1042878016349 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1042878016350 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1042878016351 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1042878016352 Walker A motif; other site 1042878016353 ATP binding site [chemical binding]; other site 1042878016354 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1042878016355 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1042878016356 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 1042878016357 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 1042878016358 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 1042878016359 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 1042878016360 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 1042878016361 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 1042878016362 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 1042878016363 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 1042878016364 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1042878016365 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 1042878016366 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 1042878016367 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1042878016368 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1042878016369 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 1042878016370 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 1042878016371 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1042878016372 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1042878016373 Probable transposase; Region: OrfB_IS605; pfam01385 1042878016374 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878016375 Transposase IS200 like; Region: Y1_Tnp; cl00848 1042878016376 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1042878016377 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1042878016378 ParB-like nuclease domain; Region: ParBc; pfam02195 1042878016379 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 1042878016380 catalytic residues [active] 1042878016381 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878016382 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878016383 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878016384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878016385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878016386 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878016387 dimerization interface [polypeptide binding]; other site 1042878016388 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 1042878016389 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1042878016390 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1042878016391 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878016392 S-adenosylmethionine binding site [chemical binding]; other site 1042878016393 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1042878016394 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 1042878016395 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878016396 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878016397 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042878016398 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878016399 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878016400 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1042878016401 Protein export membrane protein; Region: SecD_SecF; cl14618 1042878016402 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1042878016403 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1042878016404 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878016405 S-adenosylmethionine binding site [chemical binding]; other site 1042878016406 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1042878016407 active site residue [active] 1042878016408 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1042878016409 META domain; Region: META; pfam03724 1042878016410 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 1042878016411 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1042878016412 O-Antigen ligase; Region: Wzy_C; pfam04932 1042878016413 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 1042878016414 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042878016415 putative ADP-binding pocket [chemical binding]; other site 1042878016416 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1042878016417 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1042878016418 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1042878016419 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1042878016420 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1042878016421 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1042878016422 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1042878016423 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 1042878016424 active site 1042878016425 substrate binding site [chemical binding]; other site 1042878016426 metal binding site [ion binding]; metal-binding site 1042878016427 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042878016428 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 1042878016429 putative ADP-binding pocket [chemical binding]; other site 1042878016430 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1042878016431 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1042878016432 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042878016433 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1042878016434 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1042878016435 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042878016436 MULE transposase domain; Region: MULE; pfam10551 1042878016437 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1042878016438 Mg++ binding site [ion binding]; other site 1042878016439 putative catalytic motif [active] 1042878016440 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1042878016441 active site 1042878016442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878016443 NAD(P) binding site [chemical binding]; other site 1042878016444 active site 1042878016445 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1042878016446 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1042878016447 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1042878016448 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1042878016449 Ligand binding site; other site 1042878016450 Putative Catalytic site; other site 1042878016451 DXD motif; other site 1042878016452 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1042878016453 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1042878016454 catalytic core [active] 1042878016455 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1042878016456 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042878016457 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1042878016458 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042878016459 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042878016460 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1042878016461 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1042878016462 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042878016463 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 1042878016464 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1042878016465 Probable Catalytic site; other site 1042878016466 metal-binding site 1042878016467 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1042878016468 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1042878016469 Probable Catalytic site; other site 1042878016470 metal-binding site 1042878016471 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1042878016472 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042878016473 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042878016474 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 1042878016475 putative ADP-binding pocket [chemical binding]; other site 1042878016476 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 1042878016477 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042878016478 putative homodimer interface [polypeptide binding]; other site 1042878016479 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1042878016480 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1042878016481 active site 1042878016482 homodimer interface [polypeptide binding]; other site 1042878016483 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u6; cd10930 1042878016484 NodB motif; other site 1042878016485 putative active site [active] 1042878016486 putative catalytic site [active] 1042878016487 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1042878016488 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878016489 acyl-activating enzyme (AAE) consensus motif; other site 1042878016490 active site 1042878016491 AMP binding site [chemical binding]; other site 1042878016492 CoA binding site [chemical binding]; other site 1042878016493 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1042878016494 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1042878016495 Walker A/P-loop; other site 1042878016496 ATP binding site [chemical binding]; other site 1042878016497 Q-loop/lid; other site 1042878016498 ABC transporter signature motif; other site 1042878016499 Walker B; other site 1042878016500 D-loop; other site 1042878016501 H-loop/switch region; other site 1042878016502 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1042878016503 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1042878016504 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1042878016505 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1042878016506 Substrate binding site; other site 1042878016507 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1042878016508 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 1042878016509 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1042878016510 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1042878016511 substrate binding site; other site 1042878016512 tetramer interface; other site 1042878016513 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1042878016514 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1042878016515 NADP binding site [chemical binding]; other site 1042878016516 active site 1042878016517 putative substrate binding site [chemical binding]; other site 1042878016518 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1042878016519 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1042878016520 NAD binding site [chemical binding]; other site 1042878016521 substrate binding site [chemical binding]; other site 1042878016522 homodimer interface [polypeptide binding]; other site 1042878016523 active site 1042878016524 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1042878016525 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1042878016526 active site 1042878016527 metal binding site [ion binding]; metal-binding site 1042878016528 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1042878016529 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1042878016530 putative acyl-acceptor binding pocket; other site 1042878016531 dihydroorotase; Provisional; Region: PRK07627 1042878016532 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042878016533 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 1042878016534 active site 1042878016535 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1042878016536 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1042878016537 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1042878016538 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042878016539 active site 1042878016540 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1042878016541 hypothetical protein; Validated; Region: PRK00228 1042878016542 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1042878016543 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1042878016544 RNA binding surface [nucleotide binding]; other site 1042878016545 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1042878016546 active site 1042878016547 uracil binding [chemical binding]; other site 1042878016548 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1042878016549 HemY protein N-terminus; Region: HemY_N; pfam07219 1042878016550 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1042878016551 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 1042878016552 active site 1042878016553 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 1042878016554 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1042878016555 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1042878016556 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 1042878016557 domain interfaces; other site 1042878016558 active site 1042878016559 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1042878016560 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1042878016561 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1042878016562 dinuclear metal binding motif [ion binding]; other site 1042878016563 RNA polymerase sigma factor; Provisional; Region: PRK12514 1042878016564 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878016565 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042878016566 DNA binding residues [nucleotide binding] 1042878016567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 1042878016568 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1042878016569 argininosuccinate lyase; Provisional; Region: PRK00855 1042878016570 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1042878016571 active sites [active] 1042878016572 tetramer interface [polypeptide binding]; other site 1042878016573 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1042878016574 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1042878016575 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1042878016576 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1042878016577 oligomeric interface; other site 1042878016578 homodimer interface [polypeptide binding]; other site 1042878016579 putative active site [active] 1042878016580 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1042878016581 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1042878016582 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1042878016583 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878016584 catalytic residue [active] 1042878016585 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1042878016586 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1042878016587 trimer interface [polypeptide binding]; other site 1042878016588 active site 1042878016589 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 1042878016590 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 1042878016591 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1042878016592 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1042878016593 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1042878016594 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1042878016595 [4Fe-4S] binding site [ion binding]; other site 1042878016596 molybdopterin cofactor binding site; other site 1042878016597 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1042878016598 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 1042878016599 molybdopterin cofactor binding site; other site 1042878016600 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 1042878016601 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1042878016602 4Fe-4S binding domain; Region: Fer4; pfam00037 1042878016603 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042878016604 4Fe-4S binding domain; Region: Fer4; pfam00037 1042878016605 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 1042878016606 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1042878016607 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042878016608 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 1042878016609 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 1042878016610 antiporter inner membrane protein; Provisional; Region: PRK11670 1042878016611 Domain of unknown function DUF59; Region: DUF59; pfam01883 1042878016612 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 1042878016613 Walker A motif; other site 1042878016614 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1042878016615 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042878016616 ligand binding site [chemical binding]; other site 1042878016617 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1042878016618 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1042878016619 active site 1042878016620 HIGH motif; other site 1042878016621 KMSKS motif; other site 1042878016622 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1042878016623 tRNA binding surface [nucleotide binding]; other site 1042878016624 anticodon binding site; other site 1042878016625 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1042878016626 putative tRNA-binding site [nucleotide binding]; other site 1042878016627 dimer interface [polypeptide binding]; other site 1042878016628 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1042878016629 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042878016630 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042878016631 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1042878016632 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 1042878016633 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1042878016634 carboxyltransferase (CT) interaction site; other site 1042878016635 biotinylation site [posttranslational modification]; other site 1042878016636 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1042878016637 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1042878016638 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1042878016639 acyl-CoA synthetase; Validated; Region: PRK06178 1042878016640 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878016641 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878016642 acyl-activating enzyme (AAE) consensus motif; other site 1042878016643 AMP binding site [chemical binding]; other site 1042878016644 active site 1042878016645 CoA binding site [chemical binding]; other site 1042878016646 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878016647 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878016648 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878016649 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1042878016650 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 1042878016651 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1042878016652 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878016653 dimer interface [polypeptide binding]; other site 1042878016654 conserved gate region; other site 1042878016655 putative PBP binding loops; other site 1042878016656 ABC-ATPase subunit interface; other site 1042878016657 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1042878016658 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878016659 dimer interface [polypeptide binding]; other site 1042878016660 conserved gate region; other site 1042878016661 putative PBP binding loops; other site 1042878016662 ABC-ATPase subunit interface; other site 1042878016663 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1042878016664 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878016665 Walker A/P-loop; other site 1042878016666 ATP binding site [chemical binding]; other site 1042878016667 Q-loop/lid; other site 1042878016668 ABC transporter signature motif; other site 1042878016669 Walker B; other site 1042878016670 D-loop; other site 1042878016671 H-loop/switch region; other site 1042878016672 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1042878016673 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1042878016674 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878016675 Walker A/P-loop; other site 1042878016676 ATP binding site [chemical binding]; other site 1042878016677 Q-loop/lid; other site 1042878016678 ABC transporter signature motif; other site 1042878016679 Walker B; other site 1042878016680 D-loop; other site 1042878016681 H-loop/switch region; other site 1042878016682 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1042878016683 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1042878016684 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1042878016685 Family of unknown function (DUF490); Region: DUF490; pfam04357 1042878016686 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1042878016687 Surface antigen; Region: Bac_surface_Ag; pfam01103 1042878016688 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 1042878016689 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1042878016690 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1042878016691 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1042878016692 active site 1042878016693 ATP-binding site [chemical binding]; other site 1042878016694 pantoate-binding site; other site 1042878016695 HXXH motif; other site 1042878016696 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1042878016697 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1042878016698 cobyric acid synthase; Provisional; Region: PRK00784 1042878016699 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1042878016700 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1042878016701 catalytic triad [active] 1042878016702 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 1042878016703 homotrimer interface [polypeptide binding]; other site 1042878016704 Walker A motif; other site 1042878016705 GTP binding site [chemical binding]; other site 1042878016706 Walker B motif; other site 1042878016707 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1042878016708 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1042878016709 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878016710 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878016711 homodimer interface [polypeptide binding]; other site 1042878016712 catalytic residue [active] 1042878016713 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1042878016714 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 1042878016715 cobalamin binding residues [chemical binding]; other site 1042878016716 putative BtuC binding residues; other site 1042878016717 dimer interface [polypeptide binding]; other site 1042878016718 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1042878016719 catalytic core [active] 1042878016720 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1042878016721 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1042878016722 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1042878016723 active site pocket [active] 1042878016724 putative dimer interface [polypeptide binding]; other site 1042878016725 putative cataytic base [active] 1042878016726 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1042878016727 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated; Region: PRK05986 1042878016728 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1042878016729 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1042878016730 Walker A/P-loop; other site 1042878016731 ATP binding site [chemical binding]; other site 1042878016732 Q-loop/lid; other site 1042878016733 ABC transporter signature motif; other site 1042878016734 Walker B; other site 1042878016735 D-loop; other site 1042878016736 H-loop/switch region; other site 1042878016737 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1042878016738 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1042878016739 ABC-ATPase subunit interface; other site 1042878016740 dimer interface [polypeptide binding]; other site 1042878016741 putative PBP binding regions; other site 1042878016742 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1042878016743 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1042878016744 N-terminal plug; other site 1042878016745 ligand-binding site [chemical binding]; other site 1042878016746 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1042878016747 Cell division protein ZapA; Region: ZapA; pfam05164 1042878016748 Uncharacterized conserved protein [Function unknown]; Region: COG2947 1042878016749 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1042878016750 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1042878016751 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1042878016752 malonyl-CoA synthase; Validated; Region: PRK07514 1042878016753 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 1042878016754 acyl-activating enzyme (AAE) consensus motif; other site 1042878016755 active site 1042878016756 AMP binding site [chemical binding]; other site 1042878016757 CoA binding site [chemical binding]; other site 1042878016758 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878016759 substrate binding site [chemical binding]; other site 1042878016760 oxyanion hole (OAH) forming residues; other site 1042878016761 trimer interface [polypeptide binding]; other site 1042878016762 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878016763 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 1042878016764 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1042878016765 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878016766 DNA-binding site [nucleotide binding]; DNA binding site 1042878016767 FCD domain; Region: FCD; pfam07729 1042878016768 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 1042878016769 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1042878016770 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1042878016771 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1042878016772 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878016773 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 1042878016774 putative dimerization interface [polypeptide binding]; other site 1042878016775 putative substrate binding pocket [chemical binding]; other site 1042878016776 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1042878016777 DNA polymerase III subunit chi; Validated; Region: PRK05728 1042878016778 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1042878016779 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 1042878016780 interface (dimer of trimers) [polypeptide binding]; other site 1042878016781 Substrate-binding/catalytic site; other site 1042878016782 Zn-binding sites [ion binding]; other site 1042878016783 Predicted permeases [General function prediction only]; Region: COG0795 1042878016784 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1042878016785 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1042878016786 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1042878016787 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 1042878016788 putative active site [active] 1042878016789 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1042878016790 active site 1042878016791 SAM binding site [chemical binding]; other site 1042878016792 homodimer interface [polypeptide binding]; other site 1042878016793 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 1042878016794 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1042878016795 CysD dimerization site [polypeptide binding]; other site 1042878016796 G1 box; other site 1042878016797 putative GEF interaction site [polypeptide binding]; other site 1042878016798 GTP/Mg2+ binding site [chemical binding]; other site 1042878016799 Switch I region; other site 1042878016800 G2 box; other site 1042878016801 G3 box; other site 1042878016802 Switch II region; other site 1042878016803 G4 box; other site 1042878016804 G5 box; other site 1042878016805 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 1042878016806 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 1042878016807 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1042878016808 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1042878016809 Active Sites [active] 1042878016810 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1042878016811 Active Sites [active] 1042878016812 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 1042878016813 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1042878016814 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1042878016815 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1042878016816 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1042878016817 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 1042878016818 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878016819 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1042878016820 substrate binding site [chemical binding]; other site 1042878016821 dimerization interface [polypeptide binding]; other site 1042878016822 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1042878016823 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878016824 S-adenosylmethionine binding site [chemical binding]; other site 1042878016825 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1042878016826 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 1042878016827 putative ligand binding site [chemical binding]; other site 1042878016828 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1042878016829 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1042878016830 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1042878016831 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042878016832 Predicted acyltransferase [General function prediction only]; Region: COG4801 1042878016833 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1042878016834 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1042878016835 DXD motif; other site 1042878016836 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1042878016837 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1042878016838 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1042878016839 active site 1042878016840 homodimer interface [polypeptide binding]; other site 1042878016841 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1042878016842 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1042878016843 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1042878016844 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 1042878016845 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042878016846 active site 1042878016847 imidazolonepropionase; Validated; Region: PRK09356 1042878016848 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 1042878016849 active site 1042878016850 HutD; Region: HutD; pfam05962 1042878016851 urocanate hydratase; Provisional; Region: PRK05414 1042878016852 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1042878016853 active sites [active] 1042878016854 tetramer interface [polypeptide binding]; other site 1042878016855 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1042878016856 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878016857 DNA-binding site [nucleotide binding]; DNA binding site 1042878016858 UTRA domain; Region: UTRA; pfam07702 1042878016859 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1042878016860 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1042878016861 Walker A/P-loop; other site 1042878016862 ATP binding site [chemical binding]; other site 1042878016863 Q-loop/lid; other site 1042878016864 ABC transporter signature motif; other site 1042878016865 Walker B; other site 1042878016866 D-loop; other site 1042878016867 H-loop/switch region; other site 1042878016868 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042878016869 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878016870 dimer interface [polypeptide binding]; other site 1042878016871 conserved gate region; other site 1042878016872 putative PBP binding loops; other site 1042878016873 ABC-ATPase subunit interface; other site 1042878016874 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1042878016875 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878016876 substrate binding pocket [chemical binding]; other site 1042878016877 membrane-bound complex binding site; other site 1042878016878 hinge residues; other site 1042878016879 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1042878016880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878016881 NAD(P) binding site [chemical binding]; other site 1042878016882 active site 1042878016883 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1042878016884 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878016885 catalytic loop [active] 1042878016886 iron binding site [ion binding]; other site 1042878016887 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 1042878016888 FAD binding pocket [chemical binding]; other site 1042878016889 FAD binding motif [chemical binding]; other site 1042878016890 phosphate binding motif [ion binding]; other site 1042878016891 beta-alpha-beta structure motif; other site 1042878016892 NAD binding pocket [chemical binding]; other site 1042878016893 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 1042878016894 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1042878016895 inhibitor-cofactor binding pocket; inhibition site 1042878016896 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878016897 catalytic residue [active] 1042878016898 putative transposase OrfB; Reviewed; Region: PHA02517 1042878016899 Integrase core domain; Region: rve; pfam00665 1042878016900 Integrase core domain; Region: rve_3; pfam13683 1042878016901 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878016902 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878016903 Walker A/P-loop; other site 1042878016904 ATP binding site [chemical binding]; other site 1042878016905 Q-loop/lid; other site 1042878016906 ABC transporter signature motif; other site 1042878016907 Walker B; other site 1042878016908 D-loop; other site 1042878016909 H-loop/switch region; other site 1042878016910 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878016911 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878016912 Walker A/P-loop; other site 1042878016913 ATP binding site [chemical binding]; other site 1042878016914 Q-loop/lid; other site 1042878016915 ABC transporter signature motif; other site 1042878016916 Walker B; other site 1042878016917 D-loop; other site 1042878016918 H-loop/switch region; other site 1042878016919 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1042878016920 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878016921 TM-ABC transporter signature motif; other site 1042878016922 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878016923 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878016924 TM-ABC transporter signature motif; other site 1042878016925 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1042878016926 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1042878016927 dimerization interface [polypeptide binding]; other site 1042878016928 ligand binding site [chemical binding]; other site 1042878016929 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1042878016930 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1042878016931 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1042878016932 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1042878016933 hypothetical protein; Reviewed; Region: PRK00024 1042878016934 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1042878016935 MPN+ (JAMM) motif; other site 1042878016936 Zinc-binding site [ion binding]; other site 1042878016937 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1042878016938 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1042878016939 L-aspartate oxidase; Provisional; Region: PRK09077 1042878016940 L-aspartate oxidase; Provisional; Region: PRK06175 1042878016941 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1042878016942 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 1042878016943 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 1042878016944 dimerization interface [polypeptide binding]; other site 1042878016945 active site 1042878016946 quinolinate synthetase; Provisional; Region: PRK09375 1042878016947 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1042878016948 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1042878016949 Di-iron ligands [ion binding]; other site 1042878016950 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1042878016951 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1042878016952 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1042878016953 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 1042878016954 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878016955 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1042878016956 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1042878016957 active site 1042878016958 substrate binding site [chemical binding]; other site 1042878016959 cosubstrate binding site; other site 1042878016960 catalytic site [active] 1042878016961 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878016962 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878016963 active site 1042878016964 phosphorylation site [posttranslational modification] 1042878016965 intermolecular recognition site; other site 1042878016966 dimerization interface [polypeptide binding]; other site 1042878016967 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878016968 DNA binding residues [nucleotide binding] 1042878016969 dimerization interface [polypeptide binding]; other site 1042878016970 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878016971 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878016972 dimer interface [polypeptide binding]; other site 1042878016973 phosphorylation site [posttranslational modification] 1042878016974 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878016975 ATP binding site [chemical binding]; other site 1042878016976 Mg2+ binding site [ion binding]; other site 1042878016977 G-X-G motif; other site 1042878016978 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878016979 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878016980 active site 1042878016981 phosphorylation site [posttranslational modification] 1042878016982 intermolecular recognition site; other site 1042878016983 dimerization interface [polypeptide binding]; other site 1042878016984 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1042878016985 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1042878016986 active site 1042878016987 Riboflavin kinase; Region: Flavokinase; smart00904 1042878016988 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1042878016989 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1042878016990 active site 1042878016991 HIGH motif; other site 1042878016992 nucleotide binding site [chemical binding]; other site 1042878016993 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1042878016994 active site 1042878016995 KMSKS motif; other site 1042878016996 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1042878016997 tRNA binding surface [nucleotide binding]; other site 1042878016998 anticodon binding site; other site 1042878016999 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1042878017000 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1042878017001 lipoprotein signal peptidase; Provisional; Region: PRK14787 1042878017002 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1042878017003 Flavoprotein; Region: Flavoprotein; pfam02441 1042878017004 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1042878017005 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1042878017006 trimer interface [polypeptide binding]; other site 1042878017007 active site 1042878017008 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1042878017009 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878017010 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1042878017011 Clp amino terminal domain; Region: Clp_N; pfam02861 1042878017012 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878017013 Walker A motif; other site 1042878017014 ATP binding site [chemical binding]; other site 1042878017015 Walker B motif; other site 1042878017016 arginine finger; other site 1042878017017 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878017018 Walker A motif; other site 1042878017019 ATP binding site [chemical binding]; other site 1042878017020 Walker B motif; other site 1042878017021 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1042878017022 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1042878017023 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1042878017024 DNA-binding site [nucleotide binding]; DNA binding site 1042878017025 RNA-binding motif; other site 1042878017026 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_14; cd08355 1042878017027 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878017028 isocitrate dehydrogenase; Validated; Region: PRK07362 1042878017029 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1042878017030 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1042878017031 pseudouridine synthase; Region: TIGR00093 1042878017032 active site 1042878017033 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1042878017034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1042878017035 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1042878017036 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1042878017037 FAD binding domain; Region: FAD_binding_4; pfam01565 1042878017038 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1042878017039 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 1042878017040 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1042878017041 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1042878017042 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1042878017043 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 1042878017044 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1042878017045 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1042878017046 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1042878017047 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1042878017048 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1042878017049 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1042878017050 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1042878017051 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 1042878017052 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878017053 ATP binding site [chemical binding]; other site 1042878017054 Mg2+ binding site [ion binding]; other site 1042878017055 G-X-G motif; other site 1042878017056 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 1042878017057 ATP binding site [chemical binding]; other site 1042878017058 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1042878017059 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1042878017060 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1042878017061 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1042878017062 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042878017063 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878017064 DNA-binding site [nucleotide binding]; DNA binding site 1042878017065 FCD domain; Region: FCD; pfam07729 1042878017066 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1042878017067 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1042878017068 Amidase; Region: Amidase; cl11426 1042878017069 dihydropyrimidinase; Provisional; Region: PRK13404 1042878017070 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 1042878017071 tetramer interface [polypeptide binding]; other site 1042878017072 active site 1042878017073 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042878017074 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878017075 putative substrate translocation pore; other site 1042878017076 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1042878017077 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 1042878017078 dimerization interface [polypeptide binding]; other site 1042878017079 putative ATP binding site [chemical binding]; other site 1042878017080 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1042878017081 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1042878017082 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1042878017083 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 1042878017084 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1042878017085 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1042878017086 poly(A) polymerase; Region: pcnB; TIGR01942 1042878017087 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1042878017088 active site 1042878017089 NTP binding site [chemical binding]; other site 1042878017090 metal binding triad [ion binding]; metal-binding site 1042878017091 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1042878017092 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1042878017093 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 1042878017094 catalytic center binding site [active] 1042878017095 ATP binding site [chemical binding]; other site 1042878017096 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1042878017097 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 1042878017098 Substrate-binding site [chemical binding]; other site 1042878017099 Substrate specificity [chemical binding]; other site 1042878017100 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 1042878017101 oligomerization interface [polypeptide binding]; other site 1042878017102 active site 1042878017103 metal binding site [ion binding]; metal-binding site 1042878017104 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878017105 dimer interface [polypeptide binding]; other site 1042878017106 conserved gate region; other site 1042878017107 putative PBP binding loops; other site 1042878017108 ABC-ATPase subunit interface; other site 1042878017109 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878017110 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1042878017111 Walker A/P-loop; other site 1042878017112 ATP binding site [chemical binding]; other site 1042878017113 Q-loop/lid; other site 1042878017114 ABC transporter signature motif; other site 1042878017115 Walker B; other site 1042878017116 D-loop; other site 1042878017117 H-loop/switch region; other site 1042878017118 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1042878017119 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1042878017120 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 1042878017121 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1042878017122 substrate-cofactor binding pocket; other site 1042878017123 homodimer interface [polypeptide binding]; other site 1042878017124 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878017125 catalytic residue [active] 1042878017126 chaperone protein DnaJ; Provisional; Region: PRK10767 1042878017127 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1042878017128 HSP70 interaction site [polypeptide binding]; other site 1042878017129 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1042878017130 substrate binding site [polypeptide binding]; other site 1042878017131 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1042878017132 Zn binding sites [ion binding]; other site 1042878017133 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1042878017134 dimer interface [polypeptide binding]; other site 1042878017135 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1042878017136 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1042878017137 nucleotide binding site [chemical binding]; other site 1042878017138 NEF interaction site [polypeptide binding]; other site 1042878017139 SBD interface [polypeptide binding]; other site 1042878017140 ATP:cob(I)alamin adenosyltransferase; Region: PduO_Nterm; TIGR00636 1042878017141 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042878017142 FAD binding domain; Region: FAD_binding_4; pfam01565 1042878017143 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042878017144 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878017145 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1042878017146 dimerization interface [polypeptide binding]; other site 1042878017147 substrate binding pocket [chemical binding]; other site 1042878017148 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1042878017149 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878017150 Coenzyme A binding pocket [chemical binding]; other site 1042878017151 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1042878017152 FAD binding domain; Region: FAD_binding_4; pfam01565 1042878017153 Ion transport protein; Region: Ion_trans; pfam00520 1042878017154 Ion channel; Region: Ion_trans_2; pfam07885 1042878017155 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1042878017156 Double zinc ribbon; Region: DZR; pfam12773 1042878017157 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1042878017158 FAD binding domain; Region: FAD_binding_4; pfam01565 1042878017159 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1042878017160 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1042878017161 Cysteine-rich domain; Region: CCG; pfam02754 1042878017162 Cysteine-rich domain; Region: CCG; pfam02754 1042878017163 LrgA family; Region: LrgA; pfam03788 1042878017164 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1042878017165 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1042878017166 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878017167 Predicted transcriptional regulator [Transcription]; Region: COG2378 1042878017168 HTH domain; Region: HTH_11; pfam08279 1042878017169 WYL domain; Region: WYL; pfam13280 1042878017170 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 1042878017171 catalytic residues [active] 1042878017172 dimer interface [polypeptide binding]; other site 1042878017173 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1042878017174 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 1042878017175 Walker A motif; other site 1042878017176 ATP binding site [chemical binding]; other site 1042878017177 Walker B motif; other site 1042878017178 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1042878017179 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 1042878017180 Walker A motif; other site 1042878017181 ATP binding site [chemical binding]; other site 1042878017182 Walker B motif; other site 1042878017183 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1042878017184 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042878017185 catalytic residue [active] 1042878017186 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 1042878017187 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1042878017188 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1042878017189 UbiA prenyltransferase family; Region: UbiA; pfam01040 1042878017190 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1042878017191 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1042878017192 dimerization interface [polypeptide binding]; other site 1042878017193 DPS ferroxidase diiron center [ion binding]; other site 1042878017194 ion pore; other site 1042878017195 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1042878017196 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1042878017197 tetramer interface [polypeptide binding]; other site 1042878017198 heme binding pocket [chemical binding]; other site 1042878017199 NADPH binding site [chemical binding]; other site 1042878017200 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878017201 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878017202 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 1042878017203 dimerization interface [polypeptide binding]; other site 1042878017204 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1042878017205 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 1042878017206 generic binding surface II; other site 1042878017207 ssDNA binding site; other site 1042878017208 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1042878017209 ATP binding site [chemical binding]; other site 1042878017210 putative Mg++ binding site [ion binding]; other site 1042878017211 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042878017212 nucleotide binding region [chemical binding]; other site 1042878017213 ATP-binding site [chemical binding]; other site 1042878017214 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1042878017215 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1042878017216 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1042878017217 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1042878017218 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1042878017219 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1042878017220 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1042878017221 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1042878017222 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1042878017223 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1042878017224 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1042878017225 Protein export membrane protein; Region: SecD_SecF; pfam02355 1042878017226 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878017227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878017228 active site 1042878017229 phosphorylation site [posttranslational modification] 1042878017230 intermolecular recognition site; other site 1042878017231 dimerization interface [polypeptide binding]; other site 1042878017232 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878017233 active site 1042878017234 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878017235 phosphorylation site [posttranslational modification] 1042878017236 intermolecular recognition site; other site 1042878017237 dimerization interface [polypeptide binding]; other site 1042878017238 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878017239 dimer interface [polypeptide binding]; other site 1042878017240 phosphorylation site [posttranslational modification] 1042878017241 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878017242 ATP binding site [chemical binding]; other site 1042878017243 Mg2+ binding site [ion binding]; other site 1042878017244 G-X-G motif; other site 1042878017245 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878017246 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878017247 dimer interface [polypeptide binding]; other site 1042878017248 phosphorylation site [posttranslational modification] 1042878017249 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878017250 ATP binding site [chemical binding]; other site 1042878017251 Mg2+ binding site [ion binding]; other site 1042878017252 G-X-G motif; other site 1042878017253 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878017254 S-adenosylmethionine binding site [chemical binding]; other site 1042878017255 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1042878017256 YceI-like domain; Region: YceI; smart00867 1042878017257 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1042878017258 adenylosuccinate lyase; Provisional; Region: PRK09285 1042878017259 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1042878017260 tetramer interface [polypeptide binding]; other site 1042878017261 active site 1042878017262 putative glutathione S-transferase; Provisional; Region: PRK10357 1042878017263 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 1042878017264 putative C-terminal domain interface [polypeptide binding]; other site 1042878017265 putative GSH binding site (G-site) [chemical binding]; other site 1042878017266 putative dimer interface [polypeptide binding]; other site 1042878017267 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1042878017268 dimer interface [polypeptide binding]; other site 1042878017269 N-terminal domain interface [polypeptide binding]; other site 1042878017270 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1042878017271 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 1042878017272 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 1042878017273 nudix motif; other site 1042878017274 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1042878017275 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1042878017276 ligand binding site [chemical binding]; other site 1042878017277 homodimer interface [polypeptide binding]; other site 1042878017278 NAD(P) binding site [chemical binding]; other site 1042878017279 trimer interface B [polypeptide binding]; other site 1042878017280 trimer interface A [polypeptide binding]; other site 1042878017281 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1042878017282 tetramerization interface [polypeptide binding]; other site 1042878017283 active site 1042878017284 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1042878017285 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1042878017286 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1042878017287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878017288 active site 1042878017289 phosphorylation site [posttranslational modification] 1042878017290 intermolecular recognition site; other site 1042878017291 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1042878017292 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1042878017293 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1042878017294 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1042878017295 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 1042878017296 putative catalytic residue [active] 1042878017297 Predicted membrane protein [Function unknown]; Region: COG1981 1042878017298 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1042878017299 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1042878017300 putative catalytic cysteine [active] 1042878017301 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1042878017302 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1042878017303 Lipopolysaccharide-assembly; Region: LptE; cl01125 1042878017304 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1042878017305 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1042878017306 HIGH motif; other site 1042878017307 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1042878017308 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1042878017309 active site 1042878017310 KMSKS motif; other site 1042878017311 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1042878017312 tRNA binding surface [nucleotide binding]; other site 1042878017313 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1042878017314 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1042878017315 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1042878017316 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1042878017317 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1042878017318 ferric uptake regulator; Provisional; Region: fur; PRK09462 1042878017319 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1042878017320 metal binding site 2 [ion binding]; metal-binding site 1042878017321 putative DNA binding helix; other site 1042878017322 metal binding site 1 [ion binding]; metal-binding site 1042878017323 dimer interface [polypeptide binding]; other site 1042878017324 structural Zn2+ binding site [ion binding]; other site 1042878017325 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878017326 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878017327 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878017328 dimerization interface [polypeptide binding]; other site 1042878017329 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1042878017330 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1042878017331 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1042878017332 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1042878017333 transketolase; Reviewed; Region: PRK12753 1042878017334 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 1042878017335 TPP-binding site [chemical binding]; other site 1042878017336 dimer interface [polypeptide binding]; other site 1042878017337 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1042878017338 PYR/PP interface [polypeptide binding]; other site 1042878017339 dimer interface [polypeptide binding]; other site 1042878017340 TPP binding site [chemical binding]; other site 1042878017341 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1042878017342 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 1042878017343 putative dimer interface [polypeptide binding]; other site 1042878017344 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878017345 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1042878017346 RNA methyltransferase, RsmE family; Region: TIGR00046 1042878017347 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 1042878017348 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 1042878017349 putative RNAase interaction site [polypeptide binding]; other site 1042878017350 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 1042878017351 active site 1042878017352 barstar interaction site; other site 1042878017353 Malate dehydrogenase enzyme; Region: Malate_DH; pfam12434 1042878017354 malic enzyme; Reviewed; Region: PRK12862 1042878017355 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1042878017356 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1042878017357 putative NAD(P) binding site [chemical binding]; other site 1042878017358 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1042878017359 thiamine monophosphate kinase; Provisional; Region: PRK05731 1042878017360 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 1042878017361 ATP binding site [chemical binding]; other site 1042878017362 dimerization interface [polypeptide binding]; other site 1042878017363 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1042878017364 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1042878017365 tetramer interfaces [polypeptide binding]; other site 1042878017366 beta-alpha-beta structure motif; other site 1042878017367 binuclear metal-binding site [ion binding]; other site 1042878017368 Competence-damaged protein; Region: CinA; pfam02464 1042878017369 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 1042878017370 active site 1042878017371 dimer interface [polypeptide binding]; other site 1042878017372 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042878017373 EamA-like transporter family; Region: EamA; pfam00892 1042878017374 EamA-like transporter family; Region: EamA; pfam00892 1042878017375 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1042878017376 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 1042878017377 Cl binding site [ion binding]; other site 1042878017378 oligomer interface [polypeptide binding]; other site 1042878017379 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1042878017380 Transglycosylase; Region: Transgly; cl17702 1042878017381 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1042878017382 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1042878017383 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1042878017384 shikimate binding site; other site 1042878017385 NAD(P) binding site [chemical binding]; other site 1042878017386 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1042878017387 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1042878017388 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 1042878017389 RNB domain; Region: RNB; pfam00773 1042878017390 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1042878017391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878017392 NAD(P) binding site [chemical binding]; other site 1042878017393 active site 1042878017394 Chorismate lyase; Region: Chor_lyase; cl01230 1042878017395 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1042878017396 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878017397 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1042878017398 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1042878017399 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042878017400 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1042878017401 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1042878017402 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1042878017403 catalytic residues [active] 1042878017404 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 1042878017405 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1042878017406 trimer interface [polypeptide binding]; other site 1042878017407 active site 1042878017408 dimer interface [polypeptide binding]; other site 1042878017409 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1042878017410 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1042878017411 carboxyltransferase (CT) interaction site; other site 1042878017412 biotinylation site [posttranslational modification]; other site 1042878017413 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1042878017414 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042878017415 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042878017416 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1042878017417 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1042878017418 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1042878017419 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878017420 S-adenosylmethionine binding site [chemical binding]; other site 1042878017421 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1042878017422 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1042878017423 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1042878017424 dimer interface [polypeptide binding]; other site 1042878017425 catalytic triad [active] 1042878017426 peroxidatic and resolving cysteines [active] 1042878017427 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1042878017428 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 1042878017429 substrate binding site [chemical binding]; other site 1042878017430 ATP binding site [chemical binding]; other site 1042878017431 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1042878017432 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 1042878017433 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1042878017434 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1042878017435 N-terminal plug; other site 1042878017436 ligand-binding site [chemical binding]; other site 1042878017437 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878017438 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878017439 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878017440 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1042878017441 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1042878017442 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1042878017443 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1042878017444 active site 1042878017445 catalytic tetrad [active] 1042878017446 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 1042878017447 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1042878017448 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1042878017449 active site 1042878017450 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878017451 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042878017452 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042878017453 dimer interface [polypeptide binding]; other site 1042878017454 putative CheW interface [polypeptide binding]; other site 1042878017455 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042878017456 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878017457 DNA-binding site [nucleotide binding]; DNA binding site 1042878017458 FCD domain; Region: FCD; pfam07729 1042878017459 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878017460 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878017461 putative substrate translocation pore; other site 1042878017462 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1042878017463 Cytochrome c; Region: Cytochrom_C; pfam00034 1042878017464 Cytochrome c; Region: Cytochrom_C; pfam00034 1042878017465 Cupin domain; Region: Cupin_2; pfam07883 1042878017466 enoyl-CoA hydratase; Provisional; Region: PRK06144 1042878017467 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878017468 substrate binding site [chemical binding]; other site 1042878017469 oxyanion hole (OAH) forming residues; other site 1042878017470 trimer interface [polypeptide binding]; other site 1042878017471 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878017472 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878017473 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878017474 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878017475 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878017476 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878017477 dimerization interface [polypeptide binding]; other site 1042878017478 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 1042878017479 active site 1042878017480 catalytic triad [active] 1042878017481 oxyanion hole [active] 1042878017482 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1042878017483 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1042878017484 dimer interface [polypeptide binding]; other site 1042878017485 active site 1042878017486 catalytic residue [active] 1042878017487 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042878017488 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878017489 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1042878017490 dimerization interface [polypeptide binding]; other site 1042878017491 substrate binding pocket [chemical binding]; other site 1042878017492 D-serine dehydratase; Provisional; Region: PRK02991 1042878017493 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1042878017494 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878017495 catalytic residue [active] 1042878017496 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878017497 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878017498 putative substrate translocation pore; other site 1042878017499 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1042878017500 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1042878017501 MlrC C-terminus; Region: MlrC_C; pfam07171 1042878017502 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1042878017503 dimer interface [polypeptide binding]; other site 1042878017504 putative radical transfer pathway; other site 1042878017505 diiron center [ion binding]; other site 1042878017506 tyrosyl radical; other site 1042878017507 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1042878017508 ATP cone domain; Region: ATP-cone; pfam03477 1042878017509 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1042878017510 active site 1042878017511 dimer interface [polypeptide binding]; other site 1042878017512 catalytic residues [active] 1042878017513 effector binding site; other site 1042878017514 R2 peptide binding site; other site 1042878017515 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1042878017516 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1042878017517 amidase catalytic site [active] 1042878017518 Zn binding residues [ion binding]; other site 1042878017519 substrate binding site [chemical binding]; other site 1042878017520 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878017521 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878017522 active site 1042878017523 phosphorylation site [posttranslational modification] 1042878017524 intermolecular recognition site; other site 1042878017525 dimerization interface [polypeptide binding]; other site 1042878017526 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878017527 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1042878017528 Walker A motif; other site 1042878017529 ATP binding site [chemical binding]; other site 1042878017530 Walker B motif; other site 1042878017531 arginine finger; other site 1042878017532 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878017533 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878017534 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878017535 dimer interface [polypeptide binding]; other site 1042878017536 phosphorylation site [posttranslational modification] 1042878017537 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878017538 ATP binding site [chemical binding]; other site 1042878017539 Mg2+ binding site [ion binding]; other site 1042878017540 G-X-G motif; other site 1042878017541 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1042878017542 signal recognition particle protein; Provisional; Region: PRK10867 1042878017543 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1042878017544 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 1042878017545 P loop; other site 1042878017546 GTP binding site [chemical binding]; other site 1042878017547 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1042878017548 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042878017549 active site 1042878017550 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1042878017551 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1042878017552 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1042878017553 Chitin binding domain; Region: Chitin_bind_3; cl03871 1042878017554 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 1042878017555 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1042878017556 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1042878017557 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1042878017558 catalytic residue [active] 1042878017559 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1042878017560 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 1042878017561 dimer interface [polypeptide binding]; other site 1042878017562 motif 1; other site 1042878017563 active site 1042878017564 motif 2; other site 1042878017565 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 1042878017566 putative deacylase active site [active] 1042878017567 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1042878017568 active site 1042878017569 motif 3; other site 1042878017570 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 1042878017571 anticodon binding site; other site 1042878017572 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 1042878017573 putative active site [active] 1042878017574 Ap4A binding site [chemical binding]; other site 1042878017575 nudix motif; other site 1042878017576 putative metal binding site [ion binding]; other site 1042878017577 CNP1-like family; Region: CNP1; pfam08750 1042878017578 gamma-glutamyl kinase; Provisional; Region: PRK05429 1042878017579 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 1042878017580 nucleotide binding site [chemical binding]; other site 1042878017581 homotetrameric interface [polypeptide binding]; other site 1042878017582 putative phosphate binding site [ion binding]; other site 1042878017583 putative allosteric binding site; other site 1042878017584 PUA domain; Region: PUA; pfam01472 1042878017585 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1042878017586 GTP1/OBG; Region: GTP1_OBG; pfam01018 1042878017587 Obg GTPase; Region: Obg; cd01898 1042878017588 G1 box; other site 1042878017589 GTP/Mg2+ binding site [chemical binding]; other site 1042878017590 Switch I region; other site 1042878017591 G2 box; other site 1042878017592 G3 box; other site 1042878017593 Switch II region; other site 1042878017594 G4 box; other site 1042878017595 G5 box; other site 1042878017596 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1042878017597 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1042878017598 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1042878017599 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1042878017600 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1042878017601 substrate binding pocket [chemical binding]; other site 1042878017602 chain length determination region; other site 1042878017603 substrate-Mg2+ binding site; other site 1042878017604 catalytic residues [active] 1042878017605 aspartate-rich region 1; other site 1042878017606 active site lid residues [active] 1042878017607 aspartate-rich region 2; other site 1042878017608 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1042878017609 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1042878017610 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1042878017611 Walker A motif; other site 1042878017612 ATP binding site [chemical binding]; other site 1042878017613 Walker B motif; other site 1042878017614 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1042878017615 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1042878017616 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1042878017617 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 1042878017618 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1042878017619 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1042878017620 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1042878017621 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 1042878017622 CoA-binding site [chemical binding]; other site 1042878017623 ATP-binding [chemical binding]; other site 1042878017624 hypothetical protein; Provisional; Region: PRK05287 1042878017625 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1042878017626 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1042878017627 active site 1042878017628 8-oxo-dGMP binding site [chemical binding]; other site 1042878017629 nudix motif; other site 1042878017630 metal binding site [ion binding]; metal-binding site 1042878017631 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1042878017632 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878017633 Walker A motif; other site 1042878017634 ATP binding site [chemical binding]; other site 1042878017635 Walker B motif; other site 1042878017636 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 1042878017637 heterotetramer interface [polypeptide binding]; other site 1042878017638 active site pocket [active] 1042878017639 cleavage site 1042878017640 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1042878017641 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1042878017642 SEC-C motif; Region: SEC-C; pfam02810 1042878017643 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1042878017644 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1042878017645 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 1042878017646 catalytic triad [active] 1042878017647 dimer interface [polypeptide binding]; other site 1042878017648 cell division protein FtsZ; Validated; Region: PRK09330 1042878017649 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 1042878017650 nucleotide binding site [chemical binding]; other site 1042878017651 SulA interaction site; other site 1042878017652 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1042878017653 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1042878017654 nucleotide binding site [chemical binding]; other site 1042878017655 Cell division protein FtsA; Region: FtsA; pfam14450 1042878017656 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1042878017657 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1042878017658 Cell division protein FtsQ; Region: FtsQ; pfam03799 1042878017659 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1042878017660 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1042878017661 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042878017662 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1042878017663 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1042878017664 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042878017665 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1042878017666 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1042878017667 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 1042878017668 active site 1042878017669 homodimer interface [polypeptide binding]; other site 1042878017670 cell division protein FtsW; Region: ftsW; TIGR02614 1042878017671 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 1042878017672 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042878017673 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1042878017674 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1042878017675 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 1042878017676 Mg++ binding site [ion binding]; other site 1042878017677 putative catalytic motif [active] 1042878017678 putative substrate binding site [chemical binding]; other site 1042878017679 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1042878017680 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1042878017681 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042878017682 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1042878017683 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1042878017684 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042878017685 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1042878017686 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1042878017687 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1042878017688 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1042878017689 Cell division protein FtsL; Region: FtsL; cl11433 1042878017690 MraW methylase family; Region: Methyltransf_5; cl17771 1042878017691 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1042878017692 cell division protein MraZ; Reviewed; Region: PRK00326 1042878017693 MraZ protein; Region: MraZ; pfam02381 1042878017694 MraZ protein; Region: MraZ; pfam02381 1042878017695 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1042878017696 diiron binding motif [ion binding]; other site 1042878017697 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878017698 trimer interface [polypeptide binding]; other site 1042878017699 eyelet of channel; other site 1042878017700 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878017701 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878017702 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878017703 MarR family; Region: MarR; pfam01047 1042878017704 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1042878017705 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1042878017706 acyl-activating enzyme (AAE) consensus motif; other site 1042878017707 putative AMP binding site [chemical binding]; other site 1042878017708 putative active site [active] 1042878017709 putative CoA binding site [chemical binding]; other site 1042878017710 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878017711 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878017712 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 1042878017713 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1042878017714 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 1042878017715 putative [4Fe-4S] binding site [ion binding]; other site 1042878017716 putative molybdopterin cofactor binding site [chemical binding]; other site 1042878017717 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 1042878017718 putative molybdopterin cofactor binding site; other site 1042878017719 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1042878017720 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 1042878017721 putative ligand binding site [chemical binding]; other site 1042878017722 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1042878017723 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878017724 Walker A/P-loop; other site 1042878017725 ATP binding site [chemical binding]; other site 1042878017726 Q-loop/lid; other site 1042878017727 ABC transporter signature motif; other site 1042878017728 Walker B; other site 1042878017729 D-loop; other site 1042878017730 H-loop/switch region; other site 1042878017731 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1042878017732 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1042878017733 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878017734 Walker A/P-loop; other site 1042878017735 ATP binding site [chemical binding]; other site 1042878017736 Q-loop/lid; other site 1042878017737 ABC transporter signature motif; other site 1042878017738 Walker B; other site 1042878017739 D-loop; other site 1042878017740 H-loop/switch region; other site 1042878017741 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1042878017742 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1042878017743 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878017744 putative PBP binding loops; other site 1042878017745 dimer interface [polypeptide binding]; other site 1042878017746 ABC-ATPase subunit interface; other site 1042878017747 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1042878017748 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878017749 dimer interface [polypeptide binding]; other site 1042878017750 conserved gate region; other site 1042878017751 putative PBP binding loops; other site 1042878017752 ABC-ATPase subunit interface; other site 1042878017753 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1042878017754 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1042878017755 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1042878017756 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1042878017757 metal binding site [ion binding]; metal-binding site 1042878017758 putative dimer interface [polypeptide binding]; other site 1042878017759 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 1042878017760 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 1042878017761 enoyl-CoA hydratase; Provisional; Region: PRK05862 1042878017762 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878017763 substrate binding site [chemical binding]; other site 1042878017764 oxyanion hole (OAH) forming residues; other site 1042878017765 trimer interface [polypeptide binding]; other site 1042878017766 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042878017767 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042878017768 Walker A/P-loop; other site 1042878017769 ATP binding site [chemical binding]; other site 1042878017770 Q-loop/lid; other site 1042878017771 ABC transporter signature motif; other site 1042878017772 Walker B; other site 1042878017773 D-loop; other site 1042878017774 H-loop/switch region; other site 1042878017775 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042878017776 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878017777 dimer interface [polypeptide binding]; other site 1042878017778 conserved gate region; other site 1042878017779 putative PBP binding loops; other site 1042878017780 ABC-ATPase subunit interface; other site 1042878017781 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042878017782 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878017783 substrate binding pocket [chemical binding]; other site 1042878017784 membrane-bound complex binding site; other site 1042878017785 hinge residues; other site 1042878017786 enoyl-CoA hydratase; Provisional; Region: PRK08140 1042878017787 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878017788 substrate binding site [chemical binding]; other site 1042878017789 oxyanion hole (OAH) forming residues; other site 1042878017790 trimer interface [polypeptide binding]; other site 1042878017791 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1042878017792 CoenzymeA binding site [chemical binding]; other site 1042878017793 subunit interaction site [polypeptide binding]; other site 1042878017794 PHB binding site; other site 1042878017795 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878017796 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1042878017797 acyl-activating enzyme (AAE) consensus motif; other site 1042878017798 AMP binding site [chemical binding]; other site 1042878017799 active site 1042878017800 CoA binding site [chemical binding]; other site 1042878017801 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1042878017802 MltA specific insert domain; Region: MltA; smart00925 1042878017803 3D domain; Region: 3D; pfam06725 1042878017804 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1042878017805 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 1042878017806 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1042878017807 substrate binding site [chemical binding]; other site 1042878017808 hexamer interface [polypeptide binding]; other site 1042878017809 metal binding site [ion binding]; metal-binding site 1042878017810 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1042878017811 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042878017812 motif II; other site 1042878017813 anthranilate synthase component I; Provisional; Region: PRK13565 1042878017814 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1042878017815 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1042878017816 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1042878017817 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1042878017818 glutamine binding [chemical binding]; other site 1042878017819 catalytic triad [active] 1042878017820 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1042878017821 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1042878017822 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1042878017823 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 1042878017824 active site 1042878017825 ribulose/triose binding site [chemical binding]; other site 1042878017826 phosphate binding site [ion binding]; other site 1042878017827 substrate (anthranilate) binding pocket [chemical binding]; other site 1042878017828 product (indole) binding pocket [chemical binding]; other site 1042878017829 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1042878017830 putative active site [active] 1042878017831 putative metal binding residues [ion binding]; other site 1042878017832 signature motif; other site 1042878017833 putative triphosphate binding site [ion binding]; other site 1042878017834 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1042878017835 ligand binding site [chemical binding]; other site 1042878017836 active site 1042878017837 UGI interface [polypeptide binding]; other site 1042878017838 catalytic site [active] 1042878017839 Acylphosphatase; Region: Acylphosphatase; cl00551 1042878017840 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 1042878017841 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878017842 dimer interface [polypeptide binding]; other site 1042878017843 conserved gate region; other site 1042878017844 putative PBP binding loops; other site 1042878017845 ABC-ATPase subunit interface; other site 1042878017846 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878017847 dimer interface [polypeptide binding]; other site 1042878017848 conserved gate region; other site 1042878017849 putative PBP binding loops; other site 1042878017850 ABC-ATPase subunit interface; other site 1042878017851 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1042878017852 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1042878017853 Walker A/P-loop; other site 1042878017854 ATP binding site [chemical binding]; other site 1042878017855 Q-loop/lid; other site 1042878017856 ABC transporter signature motif; other site 1042878017857 Walker B; other site 1042878017858 D-loop; other site 1042878017859 H-loop/switch region; other site 1042878017860 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 1042878017861 Predicted membrane protein [Function unknown]; Region: COG1289 1042878017862 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1042878017863 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1042878017864 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1042878017865 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1042878017866 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 1042878017867 protein binding site [polypeptide binding]; other site 1042878017868 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1042878017869 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1042878017870 NADP binding site [chemical binding]; other site 1042878017871 dimer interface [polypeptide binding]; other site 1042878017872 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1042878017873 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 1042878017874 dimerization domain [polypeptide binding]; other site 1042878017875 dimer interface [polypeptide binding]; other site 1042878017876 catalytic residues [active] 1042878017877 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 1042878017878 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1042878017879 GTP-binding protein YchF; Reviewed; Region: PRK09601 1042878017880 YchF GTPase; Region: YchF; cd01900 1042878017881 G1 box; other site 1042878017882 GTP/Mg2+ binding site [chemical binding]; other site 1042878017883 Switch I region; other site 1042878017884 G2 box; other site 1042878017885 Switch II region; other site 1042878017886 G3 box; other site 1042878017887 G4 box; other site 1042878017888 G5 box; other site 1042878017889 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 1042878017890 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 1042878017891 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 1042878017892 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 1042878017893 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1042878017894 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1042878017895 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1042878017896 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1042878017897 tRNA; other site 1042878017898 putative tRNA binding site [nucleotide binding]; other site 1042878017899 putative NADP binding site [chemical binding]; other site 1042878017900 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1042878017901 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1042878017902 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1042878017903 RF-1 domain; Region: RF-1; pfam00472 1042878017904 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1042878017905 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878017906 S-adenosylmethionine binding site [chemical binding]; other site 1042878017907 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 1042878017908 putative GSH binding site [chemical binding]; other site 1042878017909 catalytic residues [active] 1042878017910 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1042878017911 Flavoprotein; Region: Flavoprotein; pfam02441 1042878017912 aldehyde dehydrogenase family 7 member; Region: PLN02315 1042878017913 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042878017914 NAD(P) binding site [chemical binding]; other site 1042878017915 catalytic residues [active] 1042878017916 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1042878017917 TrkA-N domain; Region: TrkA_N; pfam02254 1042878017918 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042878017919 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1042878017920 AsnC family; Region: AsnC_trans_reg; pfam01037 1042878017921 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1042878017922 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1042878017923 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1042878017924 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878017925 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 1042878017926 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878017927 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1042878017928 acyl-activating enzyme (AAE) consensus motif; other site 1042878017929 putative AMP binding site [chemical binding]; other site 1042878017930 putative active site [active] 1042878017931 acyl-activating enzyme (AAE) consensus motif; other site 1042878017932 putative CoA binding site [chemical binding]; other site 1042878017933 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878017934 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878017935 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878017936 putative effector binding pocket; other site 1042878017937 dimerization interface [polypeptide binding]; other site 1042878017938 Predicted transcriptional regulators [Transcription]; Region: COG1733 1042878017939 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1042878017940 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1042878017941 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1042878017942 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042878017943 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1042878017944 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042878017945 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878017946 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1042878017947 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1042878017948 putative active site [active] 1042878017949 putative metal binding site [ion binding]; other site 1042878017950 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1042878017951 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042878017952 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042878017953 ABC transporter; Region: ABC_tran_2; pfam12848 1042878017954 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042878017955 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1042878017956 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 1042878017957 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 1042878017958 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878017959 amidase; Provisional; Region: PRK07487 1042878017960 Amidase; Region: Amidase; cl11426 1042878017961 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1042878017962 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878017963 DNA-binding site [nucleotide binding]; DNA binding site 1042878017964 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1042878017965 2TM domain; Region: 2TM; pfam13239 1042878017966 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1042878017967 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878017968 active site 1042878017969 phosphorylation site [posttranslational modification] 1042878017970 intermolecular recognition site; other site 1042878017971 dimerization interface [polypeptide binding]; other site 1042878017972 LytTr DNA-binding domain; Region: LytTR; smart00850 1042878017973 2TM domain; Region: 2TM; pfam13239 1042878017974 Histidine kinase; Region: His_kinase; pfam06580 1042878017975 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1042878017976 ATP binding site [chemical binding]; other site 1042878017977 Mg2+ binding site [ion binding]; other site 1042878017978 G-X-G motif; other site 1042878017979 Nuclease-related domain; Region: NERD; pfam08378 1042878017980 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1042878017981 ATP binding site [chemical binding]; other site 1042878017982 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1042878017983 putative Mg++ binding site [ion binding]; other site 1042878017984 Family description; Region: UvrD_C_2; pfam13538 1042878017985 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 1042878017986 putative active site [active] 1042878017987 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1042878017988 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878017989 active site 1042878017990 DNA binding site [nucleotide binding] 1042878017991 Int/Topo IB signature motif; other site 1042878017992 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 1042878017993 D5 N terminal like; Region: D5_N; smart00885 1042878017994 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1042878017995 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 1042878017996 MIT_C; domain found C-terminal to MIT (contained within Microtubule Interacting and Trafficking molecules) domains, as well as in some bacterial proteins. The function of this domain is unknown; Region: MIT_C; cd02685 1042878017997 TIGR02687 family protein; Region: TIGR02687 1042878017998 PglZ domain; Region: PglZ; pfam08665 1042878017999 Family description; Region: UvrD_C_2; pfam13538 1042878018000 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 1042878018001 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 1042878018002 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1042878018003 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1042878018004 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 1042878018005 C-terminal domain interface [polypeptide binding]; other site 1042878018006 putative GSH binding site (G-site) [chemical binding]; other site 1042878018007 dimer interface [polypeptide binding]; other site 1042878018008 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1042878018009 dimer interface [polypeptide binding]; other site 1042878018010 N-terminal domain interface [polypeptide binding]; other site 1042878018011 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1042878018012 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1042878018013 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 1042878018014 Qi binding site; other site 1042878018015 intrachain domain interface; other site 1042878018016 interchain domain interface [polypeptide binding]; other site 1042878018017 heme bH binding site [chemical binding]; other site 1042878018018 heme bL binding site [chemical binding]; other site 1042878018019 Qo binding site; other site 1042878018020 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1042878018021 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1042878018022 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 1042878018023 [2Fe-2S] cluster binding site [ion binding]; other site 1042878018024 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1042878018025 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1042878018026 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1042878018027 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1042878018028 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1042878018029 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1042878018030 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1042878018031 protein binding site [polypeptide binding]; other site 1042878018032 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878018033 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878018034 trimer interface [polypeptide binding]; other site 1042878018035 eyelet of channel; other site 1042878018036 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1042878018037 sec-independent translocase; Provisional; Region: tatB; PRK01919 1042878018038 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 1042878018039 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 1042878018040 nucleotide binding site/active site [active] 1042878018041 HIT family signature motif; other site 1042878018042 catalytic residue [active] 1042878018043 Predicted membrane protein [Function unknown]; Region: COG3671 1042878018044 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 1042878018045 metal binding site [ion binding]; metal-binding site 1042878018046 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1042878018047 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 1042878018048 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1042878018049 substrate binding site [chemical binding]; other site 1042878018050 glutamase interaction surface [polypeptide binding]; other site 1042878018051 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 1042878018052 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1042878018053 catalytic residues [active] 1042878018054 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1042878018055 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1042878018056 putative active site [active] 1042878018057 oxyanion strand; other site 1042878018058 catalytic triad [active] 1042878018059 MarC family integral membrane protein; Region: MarC; cl00919 1042878018060 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1042878018061 putative active site pocket [active] 1042878018062 4-fold oligomerization interface [polypeptide binding]; other site 1042878018063 metal binding residues [ion binding]; metal-binding site 1042878018064 3-fold/trimer interface [polypeptide binding]; other site 1042878018065 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 1042878018066 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878018067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878018068 homodimer interface [polypeptide binding]; other site 1042878018069 catalytic residue [active] 1042878018070 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1042878018071 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 1042878018072 NAD binding site [chemical binding]; other site 1042878018073 dimerization interface [polypeptide binding]; other site 1042878018074 product binding site; other site 1042878018075 substrate binding site [chemical binding]; other site 1042878018076 zinc binding site [ion binding]; other site 1042878018077 catalytic residues [active] 1042878018078 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1042878018079 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1042878018080 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1042878018081 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 1042878018082 hinge; other site 1042878018083 active site 1042878018084 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1042878018085 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1042878018086 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1042878018087 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1042878018088 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1042878018089 Walker A/P-loop; other site 1042878018090 ATP binding site [chemical binding]; other site 1042878018091 Q-loop/lid; other site 1042878018092 ABC transporter signature motif; other site 1042878018093 Walker B; other site 1042878018094 D-loop; other site 1042878018095 H-loop/switch region; other site 1042878018096 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 1042878018097 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1042878018098 VacJ like lipoprotein; Region: VacJ; cl01073 1042878018099 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1042878018100 mce related protein; Region: MCE; pfam02470 1042878018101 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1042878018102 Permease; Region: Permease; pfam02405 1042878018103 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1042878018104 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1042878018105 Walker A/P-loop; other site 1042878018106 ATP binding site [chemical binding]; other site 1042878018107 Q-loop/lid; other site 1042878018108 ABC transporter signature motif; other site 1042878018109 Walker B; other site 1042878018110 D-loop; other site 1042878018111 H-loop/switch region; other site 1042878018112 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878018113 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1042878018114 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1042878018115 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042878018116 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1042878018117 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 1042878018118 active site 1042878018119 dimer interface [polypeptide binding]; other site 1042878018120 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1042878018121 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 1042878018122 active site 1042878018123 FMN binding site [chemical binding]; other site 1042878018124 substrate binding site [chemical binding]; other site 1042878018125 3Fe-4S cluster binding site [ion binding]; other site 1042878018126 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 1042878018127 domain interface; other site 1042878018128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1042878018129 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1042878018130 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042878018131 Zn2+ binding site [ion binding]; other site 1042878018132 Mg2+ binding site [ion binding]; other site 1042878018133 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1042878018134 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1042878018135 active site 1042878018136 dimer interface [polypeptide binding]; other site 1042878018137 metal binding site [ion binding]; metal-binding site 1042878018138 shikimate kinase; Reviewed; Region: aroK; PRK00131 1042878018139 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 1042878018140 ADP binding site [chemical binding]; other site 1042878018141 magnesium binding site [ion binding]; other site 1042878018142 putative shikimate binding site; other site 1042878018143 AMIN domain; Region: AMIN; pfam11741 1042878018144 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1042878018145 Secretin and TonB N terminus short domain; Region: STN; smart00965 1042878018146 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1042878018147 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1042878018148 Pilus assembly protein, PilP; Region: PilP; pfam04351 1042878018149 Pilus assembly protein, PilO; Region: PilO; cl01234 1042878018150 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1042878018151 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1042878018152 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 1042878018153 Cell division protein FtsA; Region: FtsA; cl17206 1042878018154 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1042878018155 Transglycosylase; Region: Transgly; pfam00912 1042878018156 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1042878018157 frataxin-like protein; Provisional; Region: cyaY; PRK00446 1042878018158 putative iron binding site [ion binding]; other site 1042878018159 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1042878018160 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1042878018161 active site 1042878018162 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042878018163 substrate binding site [chemical binding]; other site 1042878018164 catalytic residues [active] 1042878018165 dimer interface [polypeptide binding]; other site 1042878018166 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1042878018167 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1042878018168 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 1042878018169 Moco binding site; other site 1042878018170 metal coordination site [ion binding]; other site 1042878018171 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1042878018172 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1042878018173 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878018174 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042878018175 DNA binding residues [nucleotide binding] 1042878018176 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1042878018177 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1042878018178 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1042878018179 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1042878018180 ResB-like family; Region: ResB; pfam05140 1042878018181 Cytochrome c; Region: Cytochrom_C; cl11414 1042878018182 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042878018183 Cytochrome c; Region: Cytochrom_C; cl11414 1042878018184 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1042878018185 G1 box; other site 1042878018186 GTP/Mg2+ binding site [chemical binding]; other site 1042878018187 Switch I region; other site 1042878018188 G2 box; other site 1042878018189 G3 box; other site 1042878018190 Switch II region; other site 1042878018191 G4 box; other site 1042878018192 G5 box; other site 1042878018193 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 1042878018194 dimer interface [polypeptide binding]; other site 1042878018195 active site 1042878018196 aspartate-rich active site metal binding site; other site 1042878018197 allosteric magnesium binding site [ion binding]; other site 1042878018198 Schiff base residues; other site 1042878018199 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 1042878018200 oligomer interface [polypeptide binding]; other site 1042878018201 metal binding site [ion binding]; metal-binding site 1042878018202 metal binding site [ion binding]; metal-binding site 1042878018203 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1042878018204 putative Cl binding site [ion binding]; other site 1042878018205 aspartate ring; other site 1042878018206 hydrophobic gate; other site 1042878018207 periplasmic entrance; other site 1042878018208 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1042878018209 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1042878018210 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 1042878018211 DsbD alpha interface [polypeptide binding]; other site 1042878018212 catalytic residues [active] 1042878018213 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1042878018214 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1042878018215 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1042878018216 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1042878018217 alphaNTD homodimer interface [polypeptide binding]; other site 1042878018218 alphaNTD - beta interaction site [polypeptide binding]; other site 1042878018219 alphaNTD - beta' interaction site [polypeptide binding]; other site 1042878018220 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1042878018221 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1042878018222 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1042878018223 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1042878018224 RNA binding surface [nucleotide binding]; other site 1042878018225 30S ribosomal protein S11; Validated; Region: PRK05309 1042878018226 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1042878018227 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1042878018228 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 1042878018229 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 1042878018230 rRNA binding site [nucleotide binding]; other site 1042878018231 predicted 30S ribosome binding site; other site 1042878018232 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1042878018233 SecY translocase; Region: SecY; pfam00344 1042878018234 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1042878018235 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 1042878018236 23S rRNA binding site [nucleotide binding]; other site 1042878018237 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1042878018238 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1042878018239 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1042878018240 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 1042878018241 5S rRNA interface [nucleotide binding]; other site 1042878018242 L27 interface [polypeptide binding]; other site 1042878018243 23S rRNA interface [nucleotide binding]; other site 1042878018244 L5 interface [polypeptide binding]; other site 1042878018245 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1042878018246 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1042878018247 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1042878018248 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1042878018249 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1042878018250 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1042878018251 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1042878018252 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1042878018253 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1042878018254 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1042878018255 RNA binding site [nucleotide binding]; other site 1042878018256 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1042878018257 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1042878018258 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 1042878018259 23S rRNA interface [nucleotide binding]; other site 1042878018260 putative translocon interaction site; other site 1042878018261 signal recognition particle (SRP54) interaction site; other site 1042878018262 L23 interface [polypeptide binding]; other site 1042878018263 trigger factor interaction site; other site 1042878018264 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 1042878018265 23S rRNA interface [nucleotide binding]; other site 1042878018266 5S rRNA interface [nucleotide binding]; other site 1042878018267 putative antibiotic binding site [chemical binding]; other site 1042878018268 L25 interface [polypeptide binding]; other site 1042878018269 L27 interface [polypeptide binding]; other site 1042878018270 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1042878018271 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 1042878018272 G-X-X-G motif; other site 1042878018273 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1042878018274 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 1042878018275 putative translocon binding site; other site 1042878018276 protein-rRNA interface [nucleotide binding]; other site 1042878018277 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1042878018278 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1042878018279 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1042878018280 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1042878018281 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1042878018282 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1042878018283 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1042878018284 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1042878018285 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1042878018286 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1042878018287 short chain dehydrogenase; Provisional; Region: PRK08265 1042878018288 classical (c) SDRs; Region: SDR_c; cd05233 1042878018289 NAD(P) binding site [chemical binding]; other site 1042878018290 active site 1042878018291 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1042878018292 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1042878018293 SnoaL-like domain; Region: SnoaL_2; pfam12680 1042878018294 Helix-turn-helix domain; Region: HTH_18; pfam12833 1042878018295 Tannase and feruloyl esterase; Region: Tannase; pfam07519 1042878018296 Tannase and feruloyl esterase; Region: Tannase; pfam07519 1042878018297 Tannase and feruloyl esterase; Region: Tannase; pfam07519 1042878018298 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1042878018299 elongation factor Tu; Reviewed; Region: PRK00049 1042878018300 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1042878018301 G1 box; other site 1042878018302 GEF interaction site [polypeptide binding]; other site 1042878018303 GTP/Mg2+ binding site [chemical binding]; other site 1042878018304 Switch I region; other site 1042878018305 G2 box; other site 1042878018306 G3 box; other site 1042878018307 Switch II region; other site 1042878018308 G4 box; other site 1042878018309 G5 box; other site 1042878018310 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 1042878018311 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 1042878018312 Antibiotic Binding Site [chemical binding]; other site 1042878018313 elongation factor G; Reviewed; Region: PRK00007 1042878018314 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1042878018315 G1 box; other site 1042878018316 putative GEF interaction site [polypeptide binding]; other site 1042878018317 GTP/Mg2+ binding site [chemical binding]; other site 1042878018318 Switch I region; other site 1042878018319 G2 box; other site 1042878018320 G3 box; other site 1042878018321 Switch II region; other site 1042878018322 G4 box; other site 1042878018323 G5 box; other site 1042878018324 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 1042878018325 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 1042878018326 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 1042878018327 30S ribosomal protein S7; Validated; Region: PRK05302 1042878018328 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 1042878018329 S17 interaction site [polypeptide binding]; other site 1042878018330 S8 interaction site; other site 1042878018331 16S rRNA interaction site [nucleotide binding]; other site 1042878018332 streptomycin interaction site [chemical binding]; other site 1042878018333 23S rRNA interaction site [nucleotide binding]; other site 1042878018334 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1042878018335 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1042878018336 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1042878018337 ATP binding site [chemical binding]; other site 1042878018338 putative Mg++ binding site [ion binding]; other site 1042878018339 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042878018340 nucleotide binding region [chemical binding]; other site 1042878018341 ATP-binding site [chemical binding]; other site 1042878018342 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1042878018343 HRDC domain; Region: HRDC; pfam00570 1042878018344 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1042878018345 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1042878018346 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1042878018347 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1042878018348 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1042878018349 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1042878018350 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1042878018351 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1042878018352 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1042878018353 DNA binding site [nucleotide binding] 1042878018354 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1042878018355 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1042878018356 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1042878018357 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1042878018358 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 1042878018359 RPB11 interaction site [polypeptide binding]; other site 1042878018360 RPB12 interaction site [polypeptide binding]; other site 1042878018361 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 1042878018362 RPB3 interaction site [polypeptide binding]; other site 1042878018363 RPB1 interaction site [polypeptide binding]; other site 1042878018364 RPB11 interaction site [polypeptide binding]; other site 1042878018365 RPB10 interaction site [polypeptide binding]; other site 1042878018366 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 1042878018367 core dimer interface [polypeptide binding]; other site 1042878018368 peripheral dimer interface [polypeptide binding]; other site 1042878018369 L10 interface [polypeptide binding]; other site 1042878018370 L11 interface [polypeptide binding]; other site 1042878018371 putative EF-Tu interaction site [polypeptide binding]; other site 1042878018372 putative EF-G interaction site [polypeptide binding]; other site 1042878018373 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 1042878018374 23S rRNA interface [nucleotide binding]; other site 1042878018375 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1042878018376 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 1042878018377 mRNA/rRNA interface [nucleotide binding]; other site 1042878018378 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1042878018379 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 1042878018380 23S rRNA interface [nucleotide binding]; other site 1042878018381 L7/L12 interface [polypeptide binding]; other site 1042878018382 putative thiostrepton binding site; other site 1042878018383 L25 interface [polypeptide binding]; other site 1042878018384 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1042878018385 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1042878018386 putative homodimer interface [polypeptide binding]; other site 1042878018387 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1042878018388 heterodimer interface [polypeptide binding]; other site 1042878018389 homodimer interface [polypeptide binding]; other site 1042878018390 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1042878018391 elongation factor Tu; Reviewed; Region: PRK00049 1042878018392 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1042878018393 G1 box; other site 1042878018394 GEF interaction site [polypeptide binding]; other site 1042878018395 GTP/Mg2+ binding site [chemical binding]; other site 1042878018396 Switch I region; other site 1042878018397 G2 box; other site 1042878018398 G3 box; other site 1042878018399 Switch II region; other site 1042878018400 G4 box; other site 1042878018401 G5 box; other site 1042878018402 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 1042878018403 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 1042878018404 Antibiotic Binding Site [chemical binding]; other site 1042878018405 AMP-binding domain protein; Validated; Region: PRK08315 1042878018406 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878018407 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1042878018408 acyl-activating enzyme (AAE) consensus motif; other site 1042878018409 putative AMP binding site [chemical binding]; other site 1042878018410 putative active site [active] 1042878018411 putative CoA binding site [chemical binding]; other site 1042878018412 Protein of unknown function, DUF488; Region: DUF488; cl01246 1042878018413 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1042878018414 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1042878018415 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1042878018416 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1042878018417 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1042878018418 Ligand Binding Site [chemical binding]; other site 1042878018419 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1042878018420 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1042878018421 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1042878018422 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1042878018423 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1042878018424 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1042878018425 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1042878018426 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1042878018427 FAD binding pocket [chemical binding]; other site 1042878018428 FAD binding motif [chemical binding]; other site 1042878018429 phosphate binding motif [ion binding]; other site 1042878018430 beta-alpha-beta structure motif; other site 1042878018431 NAD(p) ribose binding residues [chemical binding]; other site 1042878018432 NAD binding pocket [chemical binding]; other site 1042878018433 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1042878018434 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878018435 catalytic loop [active] 1042878018436 iron binding site [ion binding]; other site 1042878018437 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 1042878018438 Protein of unknown function; Region: DUF3658; pfam12395 1042878018439 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878018440 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878018441 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 1042878018442 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1042878018443 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1042878018444 TrkA-N domain; Region: TrkA_N; pfam02254 1042878018445 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1042878018446 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042878018447 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042878018448 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878018449 putative DNA binding site [nucleotide binding]; other site 1042878018450 putative Zn2+ binding site [ion binding]; other site 1042878018451 AsnC family; Region: AsnC_trans_reg; pfam01037 1042878018452 EF-hand domain pair; Region: EF_hand_5; pfam13499 1042878018453 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1042878018454 Ca2+ binding site [ion binding]; other site 1042878018455 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1042878018456 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1042878018457 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 1042878018458 heme-binding site [chemical binding]; other site 1042878018459 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 1042878018460 FAD binding pocket [chemical binding]; other site 1042878018461 FAD binding motif [chemical binding]; other site 1042878018462 phosphate binding motif [ion binding]; other site 1042878018463 beta-alpha-beta structure motif; other site 1042878018464 NAD binding pocket [chemical binding]; other site 1042878018465 Heme binding pocket [chemical binding]; other site 1042878018466 Predicted transcriptional regulator [Transcription]; Region: COG1959 1042878018467 Transcriptional regulator; Region: Rrf2; cl17282 1042878018468 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1042878018469 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 1042878018470 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1042878018471 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1042878018472 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1042878018473 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1042878018474 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1042878018475 GspL periplasmic domain; Region: GspL_C; cl14909 1042878018476 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 1042878018477 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 1042878018478 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1042878018479 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1042878018480 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1042878018481 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1042878018482 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1042878018483 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1042878018484 Walker A motif; other site 1042878018485 ATP binding site [chemical binding]; other site 1042878018486 Walker B motif; other site 1042878018487 type II secretion system protein F; Region: GspF; TIGR02120 1042878018488 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1042878018489 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1042878018490 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 1042878018491 putative metal binding site [ion binding]; other site 1042878018492 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1042878018493 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1042878018494 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1042878018495 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1042878018496 dimer interface [polypeptide binding]; other site 1042878018497 PYR/PP interface [polypeptide binding]; other site 1042878018498 TPP binding site [chemical binding]; other site 1042878018499 substrate binding site [chemical binding]; other site 1042878018500 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 1042878018501 TPP-binding site; other site 1042878018502 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1042878018503 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 1042878018504 putative acetyltransferase; Provisional; Region: PRK03624 1042878018505 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878018506 Coenzyme A binding pocket [chemical binding]; other site 1042878018507 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1042878018508 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 1042878018509 dimer interface [polypeptide binding]; other site 1042878018510 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878018511 metal binding site [ion binding]; metal-binding site 1042878018512 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878018513 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878018514 putative substrate translocation pore; other site 1042878018515 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 1042878018516 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1042878018517 putative active site [active] 1042878018518 metal binding site [ion binding]; metal-binding site 1042878018519 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042878018520 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878018521 putative substrate translocation pore; other site 1042878018522 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1042878018523 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1042878018524 putative active site [active] 1042878018525 putative NTP binding site [chemical binding]; other site 1042878018526 putative nucleic acid binding site [nucleotide binding]; other site 1042878018527 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1042878018528 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1042878018529 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1042878018530 Cation efflux family; Region: Cation_efflux; cl00316 1042878018531 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1042878018532 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 1042878018533 active site 1042878018534 metal binding site [ion binding]; metal-binding site 1042878018535 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1042878018536 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1042878018537 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1042878018538 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1042878018539 catalytic residues [active] 1042878018540 Cytochrome c [Energy production and conversion]; Region: COG3258 1042878018541 Uncharacterized conserved protein [Function unknown]; Region: COG1416 1042878018542 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 1042878018543 Predicted secreted protein [Function unknown]; Region: COG5501 1042878018544 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 1042878018545 Cytochrome c; Region: Cytochrom_C; cl11414 1042878018546 Cytochrome c; Region: Cytochrom_C; pfam00034 1042878018547 Cytochrome c; Region: Cytochrom_C; cl11414 1042878018548 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1042878018549 Moco binding site; other site 1042878018550 metal coordination site [ion binding]; other site 1042878018551 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878018552 dimerization interface [polypeptide binding]; other site 1042878018553 putative DNA binding site [nucleotide binding]; other site 1042878018554 putative Zn2+ binding site [ion binding]; other site 1042878018555 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1042878018556 EamA-like transporter family; Region: EamA; pfam00892 1042878018557 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1042878018558 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 1042878018559 Cytochrome c; Region: Cytochrom_C; cl11414 1042878018560 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1042878018561 BON domain; Region: BON; pfam04972 1042878018562 BON domain; Region: BON; pfam04972 1042878018563 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 1042878018564 dimer interface [polypeptide binding]; other site 1042878018565 active site 1042878018566 hypothetical protein; Provisional; Region: PRK14673 1042878018567 Predicted methyltransferases [General function prediction only]; Region: COG0313 1042878018568 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1042878018569 putative SAM binding site [chemical binding]; other site 1042878018570 putative homodimer interface [polypeptide binding]; other site 1042878018571 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1042878018572 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1042878018573 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1042878018574 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1042878018575 active site 1042878018576 substrate binding site [chemical binding]; other site 1042878018577 catalytic site [active] 1042878018578 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 1042878018579 ArsC family; Region: ArsC; pfam03960 1042878018580 catalytic residues [active] 1042878018581 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1042878018582 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 1042878018583 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 1042878018584 putative metal binding site [ion binding]; other site 1042878018585 allantoate amidohydrolase; Reviewed; Region: PRK12890 1042878018586 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1042878018587 active site 1042878018588 metal binding site [ion binding]; metal-binding site 1042878018589 dimer interface [polypeptide binding]; other site 1042878018590 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 1042878018591 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042878018592 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878018593 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878018594 DNA-binding site [nucleotide binding]; DNA binding site 1042878018595 FCD domain; Region: FCD; pfam07729 1042878018596 short chain dehydrogenase; Provisional; Region: PRK07576 1042878018597 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878018598 NAD(P) binding site [chemical binding]; other site 1042878018599 active site 1042878018600 enoyl-CoA hydratase; Provisional; Region: PRK08140 1042878018601 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878018602 substrate binding site [chemical binding]; other site 1042878018603 oxyanion hole (OAH) forming residues; other site 1042878018604 trimer interface [polypeptide binding]; other site 1042878018605 enoyl-CoA hydratase; Provisional; Region: PRK07509 1042878018606 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878018607 substrate binding site [chemical binding]; other site 1042878018608 oxyanion hole (OAH) forming residues; other site 1042878018609 trimer interface [polypeptide binding]; other site 1042878018610 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 1042878018611 transcriptional activator TtdR; Provisional; Region: PRK09801 1042878018612 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878018613 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878018614 putative effector binding pocket; other site 1042878018615 dimerization interface [polypeptide binding]; other site 1042878018616 glyoxylate carboligase; Provisional; Region: PRK11269 1042878018617 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042878018618 PYR/PP interface [polypeptide binding]; other site 1042878018619 dimer interface [polypeptide binding]; other site 1042878018620 TPP binding site [chemical binding]; other site 1042878018621 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042878018622 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1042878018623 TPP-binding site [chemical binding]; other site 1042878018624 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1042878018625 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1042878018626 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1042878018627 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1042878018628 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1042878018629 MOFRL family; Region: MOFRL; pfam05161 1042878018630 pyruvate kinase; Provisional; Region: PRK06247 1042878018631 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1042878018632 domain interfaces; other site 1042878018633 active site 1042878018634 Predicted metalloprotease [General function prediction only]; Region: COG2321 1042878018635 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1042878018636 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1042878018637 Protein export membrane protein; Region: SecD_SecF; cl14618 1042878018638 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1042878018639 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1042878018640 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1042878018641 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1042878018642 DNA binding residues [nucleotide binding] 1042878018643 dimer interface [polypeptide binding]; other site 1042878018644 putative metal binding site [ion binding]; other site 1042878018645 heat shock protein HtpX; Provisional; Region: PRK05457 1042878018646 hypothetical protein; Provisional; Region: PRK09256 1042878018647 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1042878018648 DNA-binding site [nucleotide binding]; DNA binding site 1042878018649 RNA-binding motif; other site 1042878018650 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1042878018651 Cytochrome c; Region: Cytochrom_C; cl11414 1042878018652 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1042878018653 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1042878018654 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878018655 FeS/SAM binding site; other site 1042878018656 HemN C-terminal domain; Region: HemN_C; pfam06969 1042878018657 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1042878018658 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1042878018659 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878018660 dimer interface [polypeptide binding]; other site 1042878018661 phosphorylation site [posttranslational modification] 1042878018662 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878018663 ATP binding site [chemical binding]; other site 1042878018664 Mg2+ binding site [ion binding]; other site 1042878018665 G-X-G motif; other site 1042878018666 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042878018667 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878018668 active site 1042878018669 phosphorylation site [posttranslational modification] 1042878018670 intermolecular recognition site; other site 1042878018671 dimerization interface [polypeptide binding]; other site 1042878018672 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878018673 DNA binding site [nucleotide binding] 1042878018674 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1042878018675 Part of AAA domain; Region: AAA_19; pfam13245 1042878018676 Family description; Region: UvrD_C_2; pfam13538 1042878018677 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1042878018678 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1042878018679 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 1042878018680 lipoyl attachment site [posttranslational modification]; other site 1042878018681 glycine dehydrogenase; Provisional; Region: PRK05367 1042878018682 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 1042878018683 tetramer interface [polypeptide binding]; other site 1042878018684 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878018685 catalytic residue [active] 1042878018686 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 1042878018687 tetramer interface [polypeptide binding]; other site 1042878018688 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878018689 catalytic residue [active] 1042878018690 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1042878018691 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1042878018692 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1042878018693 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1042878018694 OsmC-like protein; Region: OsmC; pfam02566 1042878018695 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1042878018696 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 1042878018697 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1042878018698 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1042878018699 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1042878018700 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042878018701 binding surface 1042878018702 TPR motif; other site 1042878018703 Tetratricopeptide repeat; Region: TPR_9; pfam13371 1042878018704 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1042878018705 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1042878018706 dimerization interface [polypeptide binding]; other site 1042878018707 ligand binding site [chemical binding]; other site 1042878018708 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 1042878018709 Predicted transcriptional regulator [Transcription]; Region: COG3905 1042878018710 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1042878018711 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1042878018712 Glutamate binding site [chemical binding]; other site 1042878018713 NAD binding site [chemical binding]; other site 1042878018714 catalytic residues [active] 1042878018715 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1042878018716 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1042878018717 ATP binding site [chemical binding]; other site 1042878018718 putative Mg++ binding site [ion binding]; other site 1042878018719 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1042878018720 ATP-binding site [chemical binding]; other site 1042878018721 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1042878018722 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 1042878018723 substrate binding site [chemical binding]; other site 1042878018724 active site 1042878018725 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1042878018726 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1042878018727 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1042878018728 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1042878018729 gamma subunit interface [polypeptide binding]; other site 1042878018730 epsilon subunit interface [polypeptide binding]; other site 1042878018731 LBP interface [polypeptide binding]; other site 1042878018732 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1042878018733 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1042878018734 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 1042878018735 alpha subunit interaction interface [polypeptide binding]; other site 1042878018736 Walker A motif; other site 1042878018737 ATP binding site [chemical binding]; other site 1042878018738 Walker B motif; other site 1042878018739 inhibitor binding site; inhibition site 1042878018740 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1042878018741 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1042878018742 core domain interface [polypeptide binding]; other site 1042878018743 delta subunit interface [polypeptide binding]; other site 1042878018744 epsilon subunit interface [polypeptide binding]; other site 1042878018745 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1042878018746 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1042878018747 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 1042878018748 beta subunit interaction interface [polypeptide binding]; other site 1042878018749 Walker A motif; other site 1042878018750 ATP binding site [chemical binding]; other site 1042878018751 Walker B motif; other site 1042878018752 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1042878018753 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1042878018754 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1042878018755 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1042878018756 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1042878018757 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1042878018758 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1042878018759 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1042878018760 ATP synthase I chain; Region: ATP_synt_I; cl09170 1042878018761 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1042878018762 ParB-like nuclease domain; Region: ParB; smart00470 1042878018763 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1042878018764 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1042878018765 P-loop; other site 1042878018766 Magnesium ion binding site [ion binding]; other site 1042878018767 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1042878018768 Magnesium ion binding site [ion binding]; other site 1042878018769 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1042878018770 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878018771 S-adenosylmethionine binding site [chemical binding]; other site 1042878018772 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1042878018773 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1042878018774 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1042878018775 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 1042878018776 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878018777 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042878018778 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878018779 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1042878018780 dimerization interface [polypeptide binding]; other site 1042878018781 substrate binding pocket [chemical binding]; other site 1042878018782 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878018783 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878018784 Walker A/P-loop; other site 1042878018785 ATP binding site [chemical binding]; other site 1042878018786 Q-loop/lid; other site 1042878018787 ABC transporter signature motif; other site 1042878018788 Walker B; other site 1042878018789 D-loop; other site 1042878018790 H-loop/switch region; other site 1042878018791 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1042878018792 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878018793 TM-ABC transporter signature motif; other site 1042878018794 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878018795 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878018796 Walker A/P-loop; other site 1042878018797 ATP binding site [chemical binding]; other site 1042878018798 Q-loop/lid; other site 1042878018799 ABC transporter signature motif; other site 1042878018800 Walker B; other site 1042878018801 D-loop; other site 1042878018802 H-loop/switch region; other site 1042878018803 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878018804 TM-ABC transporter signature motif; other site 1042878018805 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 1042878018806 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1042878018807 putative ligand binding site [chemical binding]; other site 1042878018808 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1042878018809 hypothetical protein; Provisional; Region: PRK10621 1042878018810 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1042878018811 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878018812 TM-ABC transporter signature motif; other site 1042878018813 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878018814 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878018815 TM-ABC transporter signature motif; other site 1042878018816 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878018817 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1042878018818 putative ligand binding site [chemical binding]; other site 1042878018819 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878018820 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878018821 Walker A/P-loop; other site 1042878018822 ATP binding site [chemical binding]; other site 1042878018823 Q-loop/lid; other site 1042878018824 ABC transporter signature motif; other site 1042878018825 Walker B; other site 1042878018826 D-loop; other site 1042878018827 H-loop/switch region; other site 1042878018828 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878018829 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878018830 Walker A/P-loop; other site 1042878018831 ATP binding site [chemical binding]; other site 1042878018832 Q-loop/lid; other site 1042878018833 ABC transporter signature motif; other site 1042878018834 Walker B; other site 1042878018835 D-loop; other site 1042878018836 H-loop/switch region; other site 1042878018837 choline dehydrogenase; Validated; Region: PRK02106 1042878018838 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1042878018839 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1042878018840 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1042878018841 tetrameric interface [polypeptide binding]; other site 1042878018842 NAD binding site [chemical binding]; other site 1042878018843 catalytic residues [active] 1042878018844 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1042878018845 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042878018846 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1042878018847 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1042878018848 DNA binding residues [nucleotide binding] 1042878018849 dimer interface [polypeptide binding]; other site 1042878018850 copper binding site [ion binding]; other site 1042878018851 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1042878018852 metal-binding site [ion binding] 1042878018853 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1042878018854 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1042878018855 metal-binding site [ion binding] 1042878018856 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1042878018857 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1042878018858 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1042878018859 metal-binding site [ion binding] 1042878018860 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1042878018861 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 1042878018862 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042878018863 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878018864 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878018865 ornithine cyclodeaminase; Validated; Region: PRK07340 1042878018866 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1042878018867 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1042878018868 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1042878018869 active site 1042878018870 catalytic tetrad [active] 1042878018871 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878018872 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878018873 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1042878018874 putative effector binding pocket; other site 1042878018875 putative dimerization interface [polypeptide binding]; other site 1042878018876 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 1042878018877 Transglycosylase; Region: Transgly; pfam00912 1042878018878 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1042878018879 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1042878018880 Predicted membrane protein [Function unknown]; Region: COG3714 1042878018881 Bacterial Ig-like domain; Region: Big_5; pfam13205 1042878018882 MG2 domain; Region: A2M_N; pfam01835 1042878018883 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 1042878018884 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1042878018885 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042878018886 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878018887 putative DNA binding site [nucleotide binding]; other site 1042878018888 putative Zn2+ binding site [ion binding]; other site 1042878018889 AsnC family; Region: AsnC_trans_reg; pfam01037 1042878018890 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 1042878018891 cofactor binding site; other site 1042878018892 metal binding site [ion binding]; metal-binding site 1042878018893 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 1042878018894 aromatic arch; other site 1042878018895 DCoH dimer interaction site [polypeptide binding]; other site 1042878018896 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1042878018897 DCoH tetramer interaction site [polypeptide binding]; other site 1042878018898 substrate binding site [chemical binding]; other site 1042878018899 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042878018900 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878018901 active site 1042878018902 phosphorylation site [posttranslational modification] 1042878018903 intermolecular recognition site; other site 1042878018904 dimerization interface [polypeptide binding]; other site 1042878018905 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878018906 DNA binding site [nucleotide binding] 1042878018907 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1042878018908 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878018909 dimer interface [polypeptide binding]; other site 1042878018910 phosphorylation site [posttranslational modification] 1042878018911 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878018912 ATP binding site [chemical binding]; other site 1042878018913 Mg2+ binding site [ion binding]; other site 1042878018914 G-X-G motif; other site 1042878018915 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 1042878018916 Proteins containing SET domain [General function prediction only]; Region: COG2940 1042878018917 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1042878018918 IHF dimer interface [polypeptide binding]; other site 1042878018919 IHF - DNA interface [nucleotide binding]; other site 1042878018920 Uncharacterized protein conserved in bacteria (DUF2272); Region: DUF2272; pfam10030 1042878018921 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1042878018922 active site 1042878018923 DNA polymerase IV; Validated; Region: PRK02406 1042878018924 DNA binding site [nucleotide binding] 1042878018925 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1042878018926 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1042878018927 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1042878018928 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1042878018929 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 1042878018930 amphipathic channel; other site 1042878018931 Asn-Pro-Ala signature motifs; other site 1042878018932 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1042878018933 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878018934 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878018935 active site 1042878018936 phosphorylation site [posttranslational modification] 1042878018937 intermolecular recognition site; other site 1042878018938 dimerization interface [polypeptide binding]; other site 1042878018939 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1042878018940 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1042878018941 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1042878018942 dimerization interface [polypeptide binding]; other site 1042878018943 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878018944 putative active site [active] 1042878018945 heme pocket [chemical binding]; other site 1042878018946 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878018947 dimer interface [polypeptide binding]; other site 1042878018948 phosphorylation site [posttranslational modification] 1042878018949 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878018950 ATP binding site [chemical binding]; other site 1042878018951 Mg2+ binding site [ion binding]; other site 1042878018952 G-X-G motif; other site 1042878018953 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 1042878018954 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1042878018955 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878018956 S-adenosylmethionine binding site [chemical binding]; other site 1042878018957 M48 family peptidase; Provisional; Region: PRK03001 1042878018958 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1042878018959 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1042878018960 putative active site [active] 1042878018961 substrate binding site [chemical binding]; other site 1042878018962 putative cosubstrate binding site; other site 1042878018963 catalytic site [active] 1042878018964 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1042878018965 substrate binding site [chemical binding]; other site 1042878018966 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 1042878018967 active site 1042878018968 catalytic residues [active] 1042878018969 metal binding site [ion binding]; metal-binding site 1042878018970 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1042878018971 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1042878018972 DNA protecting protein DprA; Region: dprA; TIGR00732 1042878018973 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1042878018974 catalytic residues [active] 1042878018975 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1042878018976 DNA topoisomerase III; Validated; Region: PRK08173 1042878018977 active site 1042878018978 putative metal-binding site [ion binding]; other site 1042878018979 putative interdomain interaction site [polypeptide binding]; other site 1042878018980 putative nucleotide binding site [chemical binding]; other site 1042878018981 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 1042878018982 domain I; other site 1042878018983 DNA binding groove [nucleotide binding] 1042878018984 phosphate binding site [ion binding]; other site 1042878018985 domain II; other site 1042878018986 domain III; other site 1042878018987 nucleotide binding site [chemical binding]; other site 1042878018988 catalytic site [active] 1042878018989 domain IV; other site 1042878018990 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1042878018991 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1042878018992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878018993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878018994 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878018995 putative effector binding pocket; other site 1042878018996 dimerization interface [polypeptide binding]; other site 1042878018997 Protein of unknown function (DUF466); Region: DUF466; pfam04328 1042878018998 carbon starvation protein A; Provisional; Region: PRK15015 1042878018999 Carbon starvation protein CstA; Region: CstA; pfam02554 1042878019000 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1042878019001 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 1042878019002 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1042878019003 Histidine kinase; Region: HisKA_3; pfam07730 1042878019004 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878019005 ATP binding site [chemical binding]; other site 1042878019006 Mg2+ binding site [ion binding]; other site 1042878019007 G-X-G motif; other site 1042878019008 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878019009 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878019010 active site 1042878019011 phosphorylation site [posttranslational modification] 1042878019012 intermolecular recognition site; other site 1042878019013 dimerization interface [polypeptide binding]; other site 1042878019014 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878019015 DNA binding residues [nucleotide binding] 1042878019016 dimerization interface [polypeptide binding]; other site 1042878019017 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 1042878019018 active site 1042878019019 substrate-binding site [chemical binding]; other site 1042878019020 metal-binding site [ion binding] 1042878019021 GTP binding site [chemical binding]; other site 1042878019022 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1042878019023 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 1042878019024 dimerization interface [polypeptide binding]; other site 1042878019025 NAD binding site [chemical binding]; other site 1042878019026 ligand binding site [chemical binding]; other site 1042878019027 catalytic site [active] 1042878019028 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878019029 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878019030 putative substrate translocation pore; other site 1042878019031 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1042878019032 MOSC domain; Region: MOSC; pfam03473 1042878019033 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042878019034 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878019035 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878019036 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1042878019037 Protein of unknown function, DUF399; Region: DUF399; pfam04187 1042878019038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878019039 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1042878019040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1042878019041 Putative ammonia monooxygenase; Region: AmoA; pfam05145 1042878019042 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1042878019043 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1042878019044 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1042878019045 CoenzymeA binding site [chemical binding]; other site 1042878019046 subunit interaction site [polypeptide binding]; other site 1042878019047 PHB binding site; other site 1042878019048 Patatin-like phospholipase; Region: Patatin; pfam01734 1042878019049 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1042878019050 glutathione reductase; Validated; Region: PRK06116 1042878019051 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878019052 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878019053 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1042878019054 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1042878019055 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878019056 dimer interface [polypeptide binding]; other site 1042878019057 phosphorylation site [posttranslational modification] 1042878019058 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878019059 ATP binding site [chemical binding]; other site 1042878019060 Mg2+ binding site [ion binding]; other site 1042878019061 G-X-G motif; other site 1042878019062 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1042878019063 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878019064 active site 1042878019065 phosphorylation site [posttranslational modification] 1042878019066 intermolecular recognition site; other site 1042878019067 dimerization interface [polypeptide binding]; other site 1042878019068 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042878019069 DNA binding site [nucleotide binding] 1042878019070 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1042878019071 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1042878019072 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1042878019073 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878019074 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1042878019075 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042878019076 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878019077 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878019078 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1042878019079 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1042878019080 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1042878019081 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 1042878019082 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 1042878019083 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 1042878019084 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878019085 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878019086 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1042878019087 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1042878019088 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042878019089 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042878019090 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878019091 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1042878019092 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1042878019093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878019094 short chain dehydrogenase; Provisional; Region: PRK06924 1042878019095 NAD(P) binding site [chemical binding]; other site 1042878019096 active site 1042878019097 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042878019098 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878019099 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1042878019100 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1042878019101 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1042878019102 Rubredoxin [Energy production and conversion]; Region: COG1773 1042878019103 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1042878019104 iron binding site [ion binding]; other site 1042878019105 membrane protein insertase; Provisional; Region: PRK01318 1042878019106 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1042878019107 hypothetical protein; Validated; Region: PRK00041 1042878019108 Ribonuclease P; Region: Ribonuclease_P; cl00457 1042878019109 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1042878019110 plasmid-partitioning protein RepA; Provisional; Region: PRK13869 1042878019111 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1042878019112 P-loop; other site 1042878019113 Magnesium ion binding site [ion binding]; other site 1042878019114 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1042878019115 Magnesium ion binding site [ion binding]; other site 1042878019116 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1042878019117 ParB-like nuclease domain; Region: ParB; smart00470 1042878019118 large tegument protein UL36; Provisional; Region: PHA03247 1042878019119 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1042878019120 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 1042878019121 Int/Topo IB signature motif; other site 1042878019122 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878019123 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878019124 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878019125 classical (c) SDRs; Region: SDR_c; cd05233 1042878019126 NAD(P) binding site [chemical binding]; other site 1042878019127 active site 1042878019128 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 1042878019129 DNA binding residues [nucleotide binding] 1042878019130 dimerization interface [polypeptide binding]; other site 1042878019131 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042878019132 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1042878019133 iron-sulfur cluster [ion binding]; other site 1042878019134 [2Fe-2S] cluster binding site [ion binding]; other site 1042878019135 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878019136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878019137 NAD(P) binding site [chemical binding]; other site 1042878019138 active site 1042878019139 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878019140 classical (c) SDRs; Region: SDR_c; cd05233 1042878019141 NAD(P) binding site [chemical binding]; other site 1042878019142 active site 1042878019143 SnoaL-like domain; Region: SnoaL_4; pfam13577 1042878019144 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042878019145 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1042878019146 FMN binding site [chemical binding]; other site 1042878019147 active site 1042878019148 substrate binding site [chemical binding]; other site 1042878019149 catalytic residue [active] 1042878019150 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 1042878019151 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878019152 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1042878019153 acyl-activating enzyme (AAE) consensus motif; other site 1042878019154 acyl-activating enzyme (AAE) consensus motif; other site 1042878019155 putative AMP binding site [chemical binding]; other site 1042878019156 putative active site [active] 1042878019157 putative CoA binding site [chemical binding]; other site 1042878019158 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1042878019159 CoA binding domain; Region: CoA_binding_2; pfam13380 1042878019160 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1042878019161 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1042878019162 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878019163 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1042878019164 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 1042878019165 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1042878019166 active site 1042878019167 oxalacetate binding site [chemical binding]; other site 1042878019168 citrylCoA binding site [chemical binding]; other site 1042878019169 coenzyme A binding site [chemical binding]; other site 1042878019170 catalytic triad [active] 1042878019171 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878019172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878019173 NAD(P) binding site [chemical binding]; other site 1042878019174 active site 1042878019175 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878019176 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878019177 active site 1042878019178 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1042878019179 active site 1042878019180 catalytic site [active] 1042878019181 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 1042878019182 active site 1042878019183 catalytic site [active] 1042878019184 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042878019185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878019186 NAD(P) binding site [chemical binding]; other site 1042878019187 active site 1042878019188 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878019189 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878019190 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1042878019191 AAA ATPase domain; Region: AAA_16; pfam13191 1042878019192 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878019193 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878019194 DNA binding residues [nucleotide binding] 1042878019195 dimerization interface [polypeptide binding]; other site 1042878019196 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1042878019197 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042878019198 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 1042878019199 Uncharacterized BCR, COG1636; Region: DUF208; cl17782 1042878019200 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1042878019201 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878019202 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 1042878019203 putative dimerization interface [polypeptide binding]; other site 1042878019204 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042878019205 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 1042878019206 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 1042878019207 methionine synthase; Provisional; Region: PRK01207 1042878019208 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1042878019209 substrate binding site [chemical binding]; other site 1042878019210 THF binding site; other site 1042878019211 zinc-binding site [ion binding]; other site 1042878019212 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1042878019213 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1042878019214 tetrameric interface [polypeptide binding]; other site 1042878019215 NAD binding site [chemical binding]; other site 1042878019216 catalytic residues [active] 1042878019217 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878019218 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878019219 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878019220 putative effector binding pocket; other site 1042878019221 dimerization interface [polypeptide binding]; other site 1042878019222 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1042878019223 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042878019224 PYR/PP interface [polypeptide binding]; other site 1042878019225 dimer interface [polypeptide binding]; other site 1042878019226 TPP binding site [chemical binding]; other site 1042878019227 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042878019228 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1042878019229 TPP-binding site [chemical binding]; other site 1042878019230 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 1042878019231 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878019232 catalytic loop [active] 1042878019233 iron binding site [ion binding]; other site 1042878019234 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 1042878019235 Iron-sulfur protein interface; other site 1042878019236 proximal heme binding site [chemical binding]; other site 1042878019237 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 1042878019238 Iron-sulfur protein interface; other site 1042878019239 proximal heme binding site [chemical binding]; other site 1042878019240 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK06263 1042878019241 L-aspartate oxidase; Provisional; Region: PRK06175 1042878019242 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1042878019243 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1042878019244 Fumarase C-terminus; Region: Fumerase_C; cl00795 1042878019245 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1042878019246 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878019247 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878019248 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 1042878019249 putative dimerization interface [polypeptide binding]; other site 1042878019250 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878019251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878019252 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1042878019253 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042878019254 FAD binding domain; Region: FAD_binding_4; pfam01565 1042878019255 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042878019256 dimerization interface [polypeptide binding]; other site 1042878019257 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878019258 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878019259 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878019260 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878019261 active site 1042878019262 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878019263 Predicted permeases [General function prediction only]; Region: COG0679 1042878019264 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878019265 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878019266 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 1042878019267 putative dimerization interface [polypeptide binding]; other site 1042878019268 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878019269 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878019270 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042878019271 dimerization interface [polypeptide binding]; other site 1042878019272 aspartate aminotransferase; Provisional; Region: PRK05764 1042878019273 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878019274 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878019275 homodimer interface [polypeptide binding]; other site 1042878019276 catalytic residue [active] 1042878019277 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1042878019278 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042878019279 PYR/PP interface [polypeptide binding]; other site 1042878019280 dimer interface [polypeptide binding]; other site 1042878019281 TPP binding site [chemical binding]; other site 1042878019282 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042878019283 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1042878019284 TPP-binding site [chemical binding]; other site 1042878019285 succinic semialdehyde dehydrogenase; Region: PLN02278 1042878019286 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1042878019287 tetramerization interface [polypeptide binding]; other site 1042878019288 NAD(P) binding site [chemical binding]; other site 1042878019289 catalytic residues [active] 1042878019290 acetylornithine deacetylase; Provisional; Region: PRK07522 1042878019291 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1042878019292 metal binding site [ion binding]; metal-binding site 1042878019293 putative dimer interface [polypeptide binding]; other site 1042878019294 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042878019295 MULE transposase domain; Region: MULE; pfam10551 1042878019296 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878019297 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878019298 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1042878019299 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_7; cd08353 1042878019300 putative dimer interface [polypeptide binding]; other site 1042878019301 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878019302 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1042878019303 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878019304 catalytic triad [active] 1042878019305 dimer interface [polypeptide binding]; other site 1042878019306 conserved cis-peptide bond; other site 1042878019307 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878019308 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1042878019309 catalytic triad [active] 1042878019310 dimer interface [polypeptide binding]; other site 1042878019311 conserved cis-peptide bond; other site 1042878019312 Predicted acyl esterases [General function prediction only]; Region: COG2936 1042878019313 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 1042878019314 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878019315 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878019316 eyelet of channel; other site 1042878019317 trimer interface [polypeptide binding]; other site 1042878019318 fumarylacetoacetase; Region: PLN02856 1042878019319 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 1042878019320 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878019321 Putative cyclase; Region: Cyclase; pfam04199 1042878019322 benzoate transport; Region: 2A0115; TIGR00895 1042878019323 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878019324 putative substrate translocation pore; other site 1042878019325 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878019326 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878019327 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878019328 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878019329 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878019330 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878019331 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878019332 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878019333 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878019334 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878019335 DNA-binding site [nucleotide binding]; DNA binding site 1042878019336 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878019337 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878019338 homodimer interface [polypeptide binding]; other site 1042878019339 catalytic residue [active] 1042878019340 Cupin domain; Region: Cupin_2; pfam07883 1042878019341 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 1042878019342 dimer interface [polypeptide binding]; other site 1042878019343 FMN binding site [chemical binding]; other site 1042878019344 Protein of unknown function, DUF417; Region: DUF417; cl01162 1042878019345 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1042878019346 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042878019347 Coenzyme A binding pocket [chemical binding]; other site 1042878019348 transcriptional regulator; Provisional; Region: PRK10632 1042878019349 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878019350 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1042878019351 putative effector binding pocket; other site 1042878019352 putative dimerization interface [polypeptide binding]; other site 1042878019353 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 1042878019354 dimer interface [polypeptide binding]; other site 1042878019355 FMN binding site [chemical binding]; other site 1042878019356 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1042878019357 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1042878019358 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1042878019359 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 1042878019360 C-terminal domain interface [polypeptide binding]; other site 1042878019361 GSH binding site (G-site) [chemical binding]; other site 1042878019362 dimer interface [polypeptide binding]; other site 1042878019363 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1042878019364 dimer interface [polypeptide binding]; other site 1042878019365 N-terminal domain interface [polypeptide binding]; other site 1042878019366 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1042878019367 Cupin; Region: Cupin_6; pfam12852 1042878019368 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878019369 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042878019370 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878019371 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1042878019372 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042878019373 Transposase; Region: HTH_Tnp_1; pfam01527 1042878019374 putative transposase OrfB; Reviewed; Region: PHA02517 1042878019375 Integrase core domain; Region: rve; pfam00665 1042878019376 Integrase core domain; Region: rve_3; pfam13683 1042878019377 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1042878019378 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1042878019379 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1042878019380 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1042878019381 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1042878019382 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1042878019383 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878019384 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878019385 non-specific DNA binding site [nucleotide binding]; other site 1042878019386 salt bridge; other site 1042878019387 sequence-specific DNA binding site [nucleotide binding]; other site 1042878019388 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1042878019389 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1042878019390 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1042878019391 alanine racemase; Reviewed; Region: PRK13340 1042878019392 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1042878019393 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042878019394 catalytic residue [active] 1042878019395 succinylarginine dihydrolase; Provisional; Region: PRK13281 1042878019396 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1042878019397 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 1042878019398 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1042878019399 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 1042878019400 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1042878019401 conserved cys residue [active] 1042878019402 Helix-turn-helix domain; Region: HTH_18; pfam12833 1042878019403 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878019404 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1042878019405 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878019406 substrate binding pocket [chemical binding]; other site 1042878019407 membrane-bound complex binding site; other site 1042878019408 hinge residues; other site 1042878019409 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042878019410 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042878019411 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042878019412 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878019413 dimer interface [polypeptide binding]; other site 1042878019414 conserved gate region; other site 1042878019415 putative PBP binding loops; other site 1042878019416 ABC-ATPase subunit interface; other site 1042878019417 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042878019418 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878019419 dimer interface [polypeptide binding]; other site 1042878019420 conserved gate region; other site 1042878019421 putative PBP binding loops; other site 1042878019422 ABC-ATPase subunit interface; other site 1042878019423 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1042878019424 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042878019425 Walker A/P-loop; other site 1042878019426 ATP binding site [chemical binding]; other site 1042878019427 Q-loop/lid; other site 1042878019428 ABC transporter signature motif; other site 1042878019429 Walker B; other site 1042878019430 D-loop; other site 1042878019431 H-loop/switch region; other site 1042878019432 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1042878019433 YheO-like PAS domain; Region: PAS_6; pfam08348 1042878019434 HTH domain; Region: HTH_22; pfam13309 1042878019435 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1042878019436 homotrimer interaction site [polypeptide binding]; other site 1042878019437 putative active site [active] 1042878019438 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878019439 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878019440 DNA-binding site [nucleotide binding]; DNA binding site 1042878019441 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878019442 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878019443 homodimer interface [polypeptide binding]; other site 1042878019444 catalytic residue [active] 1042878019445 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 1042878019446 active site 1042878019447 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 1042878019448 biotin carboxylase-like protein; Validated; Region: PRK06524 1042878019449 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042878019450 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1042878019451 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1042878019452 active site 1042878019453 catalytic triad [active] 1042878019454 dimer interface [polypeptide binding]; other site 1042878019455 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1042878019456 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878019457 Walker A/P-loop; other site 1042878019458 ATP binding site [chemical binding]; other site 1042878019459 Q-loop/lid; other site 1042878019460 ABC transporter signature motif; other site 1042878019461 Walker B; other site 1042878019462 D-loop; other site 1042878019463 H-loop/switch region; other site 1042878019464 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1042878019465 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042878019466 Walker A/P-loop; other site 1042878019467 ATP binding site [chemical binding]; other site 1042878019468 Q-loop/lid; other site 1042878019469 ABC transporter signature motif; other site 1042878019470 Walker B; other site 1042878019471 D-loop; other site 1042878019472 H-loop/switch region; other site 1042878019473 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1042878019474 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1042878019475 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878019476 dimer interface [polypeptide binding]; other site 1042878019477 conserved gate region; other site 1042878019478 putative PBP binding loops; other site 1042878019479 ABC-ATPase subunit interface; other site 1042878019480 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1042878019481 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878019482 dimer interface [polypeptide binding]; other site 1042878019483 conserved gate region; other site 1042878019484 putative PBP binding loops; other site 1042878019485 ABC-ATPase subunit interface; other site 1042878019486 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1042878019487 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 1042878019488 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1042878019489 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042878019490 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878019491 putative substrate translocation pore; other site 1042878019492 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1042878019493 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1042878019494 NAD(P) binding site [chemical binding]; other site 1042878019495 catalytic residues [active] 1042878019496 allantoate amidohydrolase; Reviewed; Region: PRK12893 1042878019497 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1042878019498 active site 1042878019499 metal binding site [ion binding]; metal-binding site 1042878019500 dimer interface [polypeptide binding]; other site 1042878019501 thiamine pyrophosphate protein; Validated; Region: PRK08199 1042878019502 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042878019503 PYR/PP interface [polypeptide binding]; other site 1042878019504 dimer interface [polypeptide binding]; other site 1042878019505 TPP binding site [chemical binding]; other site 1042878019506 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042878019507 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 1042878019508 TPP-binding site [chemical binding]; other site 1042878019509 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1042878019510 DctM-like transporters; Region: DctM; pfam06808 1042878019511 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1042878019512 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1042878019513 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1042878019514 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1042878019515 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042878019516 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878019517 DNA-binding site [nucleotide binding]; DNA binding site 1042878019518 FCD domain; Region: FCD; pfam07729 1042878019519 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 1042878019520 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1042878019521 inhibitor-cofactor binding pocket; inhibition site 1042878019522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878019523 catalytic residue [active] 1042878019524 succinic semialdehyde dehydrogenase; Region: PLN02278 1042878019525 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1042878019526 tetramerization interface [polypeptide binding]; other site 1042878019527 NAD(P) binding site [chemical binding]; other site 1042878019528 catalytic residues [active] 1042878019529 D-lactate dehydrogenase; Provisional; Region: PRK11183 1042878019530 FAD binding domain; Region: FAD_binding_4; pfam01565 1042878019531 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1042878019532 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1042878019533 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878019534 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042878019535 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878019536 DNA-binding site [nucleotide binding]; DNA binding site 1042878019537 FCD domain; Region: FCD; cl11656 1042878019538 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1042878019539 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878019540 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878019541 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878019542 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878019543 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1042878019544 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1042878019545 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1042878019546 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878019547 S-adenosylmethionine binding site [chemical binding]; other site 1042878019548 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1042878019549 SelR domain; Region: SelR; pfam01641 1042878019550 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1042878019551 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1042878019552 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 1042878019553 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1042878019554 catalytic residues [active] 1042878019555 methionine sulfoxide reductase A; Provisional; Region: PRK13014 1042878019556 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878019557 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878019558 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1042878019559 substrate binding pocket [chemical binding]; other site 1042878019560 dimerization interface [polypeptide binding]; other site 1042878019561 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878019562 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878019563 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878019564 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878019565 substrate binding site [chemical binding]; other site 1042878019566 oxyanion hole (OAH) forming residues; other site 1042878019567 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878019568 trimer interface [polypeptide binding]; other site 1042878019569 enoyl-CoA hydratase; Provisional; Region: PRK06210 1042878019570 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878019571 substrate binding site [chemical binding]; other site 1042878019572 oxyanion hole (OAH) forming residues; other site 1042878019573 trimer interface [polypeptide binding]; other site 1042878019574 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 1042878019575 NADPH bind site [chemical binding]; other site 1042878019576 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 1042878019577 putative FMN binding site [chemical binding]; other site 1042878019578 NADPH bind site [chemical binding]; other site 1042878019579 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 1042878019580 PemK-like protein; Region: PemK; pfam02452 1042878019581 PemK-like protein; Region: PemK; cl00995 1042878019582 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1042878019583 DNA photolyase; Region: DNA_photolyase; pfam00875 1042878019584 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878019585 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878019586 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878019587 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878019588 non-specific DNA binding site [nucleotide binding]; other site 1042878019589 salt bridge; other site 1042878019590 sequence-specific DNA binding site [nucleotide binding]; other site 1042878019591 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1042878019592 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1042878019593 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1042878019594 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1042878019595 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878019596 catalytic residue [active] 1042878019597 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878019598 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1042878019599 active site residue [active] 1042878019600 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1042878019601 active site residue [active] 1042878019602 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1042878019603 active site residue [active] 1042878019604 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1042878019605 active site residue [active] 1042878019606 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1042878019607 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878019608 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878019609 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 1042878019610 putative dimerization interface [polypeptide binding]; other site 1042878019611 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1042878019612 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 1042878019613 S-adenosylmethionine synthetase (AdoMet synthetase); Region: AdoMet_Synthase; pfam01941 1042878019614 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1042878019615 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1042878019616 Repair protein; Region: Repair_PSII; pfam04536 1042878019617 Repair protein; Region: Repair_PSII; cl01535 1042878019618 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR8; cd08273 1042878019619 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042878019620 putative NAD(P) binding site [chemical binding]; other site 1042878019621 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878019622 membrane-bound complex binding site; other site 1042878019623 hinge residues; other site 1042878019624 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878019625 S-adenosylmethionine binding site [chemical binding]; other site 1042878019626 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1042878019627 active site 1042878019628 catalytic site [active] 1042878019629 Predicted membrane protein [Function unknown]; Region: COG2259 1042878019630 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1042878019631 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1042878019632 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1042878019633 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1042878019634 putative dimer interface [polypeptide binding]; other site 1042878019635 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1042878019636 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1042878019637 putative dimer interface [polypeptide binding]; other site 1042878019638 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 1042878019639 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1042878019640 HSP70 interaction site [polypeptide binding]; other site 1042878019641 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1042878019642 substrate binding site [polypeptide binding]; other site 1042878019643 dimer interface [polypeptide binding]; other site 1042878019644 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 1042878019645 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1042878019646 Integrase core domain; Region: rve; pfam00665 1042878019647 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878019648 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878019649 non-specific DNA binding site [nucleotide binding]; other site 1042878019650 salt bridge; other site 1042878019651 sequence-specific DNA binding site [nucleotide binding]; other site 1042878019652 Winged helix-turn helix; Region: HTH_33; pfam13592 1042878019653 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1042878019654 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1042878019655 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1042878019656 Probable transposase; Region: OrfB_IS605; pfam01385 1042878019657 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878019658 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1042878019659 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878019660 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878019661 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878019662 Winged helix-turn helix; Region: HTH_29; pfam13551 1042878019663 Homeodomain-like domain; Region: HTH_32; pfam13565 1042878019664 Integrase core domain; Region: rve; pfam00665 1042878019665 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1042878019666 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878019667 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042878019668 dimerization interface [polypeptide binding]; other site 1042878019669 substrate binding pocket [chemical binding]; other site 1042878019670 carbon starvation induced protein; Validated; Region: PRK02963 1042878019671 substrate binding pocket [chemical binding]; other site 1042878019672 active site 1042878019673 iron coordination sites [ion binding]; other site 1042878019674 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1042878019675 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1042878019676 phosphate binding site [ion binding]; other site 1042878019677 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1042878019678 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1042878019679 NADP binding site [chemical binding]; other site 1042878019680 dimer interface [polypeptide binding]; other site 1042878019681 classical (c) SDRs; Region: SDR_c; cd05233 1042878019682 NAD(P) binding site [chemical binding]; other site 1042878019683 active site 1042878019684 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1042878019685 iron-sulfur cluster [ion binding]; other site 1042878019686 [2Fe-2S] cluster binding site [ion binding]; other site 1042878019687 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1042878019688 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1042878019689 catalytic residues [active] 1042878019690 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1042878019691 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042878019692 putative NAD(P) binding site [chemical binding]; other site 1042878019693 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878019694 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878019695 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878019696 putative substrate translocation pore; other site 1042878019697 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1042878019698 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878019699 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1042878019700 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1042878019701 active site 1042878019702 iron coordination sites [ion binding]; other site 1042878019703 substrate binding pocket [chemical binding]; other site 1042878019704 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878019705 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 1042878019706 Archaeal ATPase; Region: Arch_ATPase; pfam01637 1042878019707 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1042878019708 sequence-specific DNA binding site [nucleotide binding]; other site 1042878019709 salt bridge; other site 1042878019710 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1042878019711 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878019712 Walker A motif; other site 1042878019713 ATP binding site [chemical binding]; other site 1042878019714 Walker B motif; other site 1042878019715 arginine finger; other site 1042878019716 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878019717 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1042878019718 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 1042878019719 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878019720 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 1042878019721 3-isopropylmalate dehydratase, small subunit; Region: LEUD_arch; TIGR02087 1042878019722 substrate binding site [chemical binding]; other site 1042878019723 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1042878019724 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1042878019725 substrate binding site [chemical binding]; other site 1042878019726 ligand binding site [chemical binding]; other site 1042878019727 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878019728 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878019729 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878019730 dimerization interface [polypeptide binding]; other site 1042878019731 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878019732 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878019733 Tannase and feruloyl esterase; Region: Tannase; pfam07519 1042878019734 acyl-CoA synthetase; Validated; Region: PRK08162 1042878019735 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1042878019736 acyl-activating enzyme (AAE) consensus motif; other site 1042878019737 putative active site [active] 1042878019738 AMP binding site [chemical binding]; other site 1042878019739 putative CoA binding site [chemical binding]; other site 1042878019740 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1042878019741 putative FMN binding site [chemical binding]; other site 1042878019742 benzoate transport; Region: 2A0115; TIGR00895 1042878019743 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878019744 putative substrate translocation pore; other site 1042878019745 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1042878019746 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1042878019747 NAD binding site [chemical binding]; other site 1042878019748 homodimer interface [polypeptide binding]; other site 1042878019749 homotetramer interface [polypeptide binding]; other site 1042878019750 active site 1042878019751 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1042878019752 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878019753 dimer interface [polypeptide binding]; other site 1042878019754 active site 1042878019755 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042878019756 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042878019757 ligand binding site [chemical binding]; other site 1042878019758 flexible hinge region; other site 1042878019759 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1042878019760 putative switch regulator; other site 1042878019761 non-specific DNA interactions [nucleotide binding]; other site 1042878019762 DNA binding site [nucleotide binding] 1042878019763 sequence specific DNA binding site [nucleotide binding]; other site 1042878019764 putative cAMP binding site [chemical binding]; other site 1042878019765 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1042878019766 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878019767 acyl-activating enzyme (AAE) consensus motif; other site 1042878019768 AMP binding site [chemical binding]; other site 1042878019769 active site 1042878019770 CoA binding site [chemical binding]; other site 1042878019771 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878019772 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878019773 Secretory lipase; Region: LIP; pfam03583 1042878019774 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1042878019775 CoenzymeA binding site [chemical binding]; other site 1042878019776 subunit interaction site [polypeptide binding]; other site 1042878019777 PHB binding site; other site 1042878019778 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1042878019779 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878019780 putative substrate translocation pore; other site 1042878019781 short chain dehydrogenase; Provisional; Region: PRK06179 1042878019782 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1042878019783 NADP binding site [chemical binding]; other site 1042878019784 active site 1042878019785 steroid binding site; other site 1042878019786 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042878019787 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878019788 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878019789 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042878019790 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878019791 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878019792 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1042878019793 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878019794 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 1042878019795 Methylmuconolactone methyl-isomerase; Region: MmlI; pfam09448 1042878019796 benzoate transport; Region: 2A0115; TIGR00895 1042878019797 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878019798 putative substrate translocation pore; other site 1042878019799 Coenzyme A transferase; Region: CoA_trans; cl17247 1042878019800 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 1042878019801 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878019802 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878019803 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1042878019804 putative dimerization interface [polypeptide binding]; other site 1042878019805 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042878019806 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878019807 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878019808 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1042878019809 putative dimerization interface [polypeptide binding]; other site 1042878019810 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1042878019811 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1042878019812 active site 1042878019813 NAD binding site [chemical binding]; other site 1042878019814 metal binding site [ion binding]; metal-binding site 1042878019815 UTRA domain; Region: UTRA; cl17743 1042878019816 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878019817 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878019818 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042878019819 dimerization interface [polypeptide binding]; other site 1042878019820 EamA-like transporter family; Region: EamA; pfam00892 1042878019821 EamA-like transporter family; Region: EamA; pfam00892 1042878019822 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878019823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878019824 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878019825 Cupin domain; Region: Cupin_2; pfam07883 1042878019826 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1042878019827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878019828 active site 1042878019829 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878019830 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878019831 DNA-binding site [nucleotide binding]; DNA binding site 1042878019832 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878019833 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878019834 homodimer interface [polypeptide binding]; other site 1042878019835 catalytic residue [active] 1042878019836 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878019837 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878019838 trimer interface [polypeptide binding]; other site 1042878019839 eyelet of channel; other site 1042878019840 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1042878019841 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1042878019842 active site 1042878019843 substrate binding site [chemical binding]; other site 1042878019844 activation loop (A-loop); other site 1042878019845 AAA ATPase domain; Region: AAA_16; pfam13191 1042878019846 Predicted ATPase [General function prediction only]; Region: COG3899 1042878019847 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1042878019848 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1042878019849 PAS domain S-box; Region: sensory_box; TIGR00229 1042878019850 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878019851 putative active site [active] 1042878019852 heme pocket [chemical binding]; other site 1042878019853 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878019854 ATP binding site [chemical binding]; other site 1042878019855 Mg2+ binding site [ion binding]; other site 1042878019856 G-X-G motif; other site 1042878019857 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1042878019858 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1042878019859 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1042878019860 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1042878019861 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878019862 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878019863 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042878019864 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1042878019865 FMN binding site [chemical binding]; other site 1042878019866 active site 1042878019867 substrate binding site [chemical binding]; other site 1042878019868 catalytic residue [active] 1042878019869 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1042878019870 classical (c) SDRs; Region: SDR_c; cd05233 1042878019871 NAD(P) binding site [chemical binding]; other site 1042878019872 active site 1042878019873 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042878019874 TAP-like protein; Region: Abhydrolase_4; pfam08386 1042878019875 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1042878019876 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042878019877 putative NAD(P) binding site [chemical binding]; other site 1042878019878 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878019879 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1042878019880 homodimer interface [polypeptide binding]; other site 1042878019881 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878019882 catalytic residue [active] 1042878019883 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042878019884 MULE transposase domain; Region: MULE; pfam10551 1042878019885 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 1042878019886 Hemerythrin family; Region: Hemerythrin-like; cl15774 1042878019887 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1042878019888 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 1042878019889 active site 1042878019890 dimer interface [polypeptide binding]; other site 1042878019891 metal binding site [ion binding]; metal-binding site 1042878019892 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878019893 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878019894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878019895 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878019896 putative effector binding pocket; other site 1042878019897 dimerization interface [polypeptide binding]; other site 1042878019898 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 1042878019899 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1042878019900 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1042878019901 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1042878019902 UDP-N-acetylmuramate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: MurB; COG0812 1042878019903 FAD binding domain; Region: FAD_binding_4; pfam01565 1042878019904 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1042878019905 NUDIX domain; Region: NUDIX; pfam00293 1042878019906 nudix motif; other site 1042878019907 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 1042878019908 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878019909 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878019910 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878019911 Fic/DOC family; Region: Fic; cl00960 1042878019912 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1042878019913 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 1042878019914 Int/Topo IB signature motif; other site 1042878019915 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 1042878019916 putative active site [active] 1042878019917 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1042878019918 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1042878019919 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1042878019920 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878019921 active site 1042878019922 DNA binding site [nucleotide binding] 1042878019923 Int/Topo IB signature motif; other site 1042878019924 PAS domain; Region: PAS_10; pfam13596 1042878019925 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1042878019926 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878019927 Walker A motif; other site 1042878019928 ATP binding site [chemical binding]; other site 1042878019929 Walker B motif; other site 1042878019930 arginine finger; other site 1042878019931 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878019932 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1042878019933 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1042878019934 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1042878019935 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1042878019936 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042878019937 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042878019938 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1042878019939 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 1042878019940 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1042878019941 carboxyltransferase (CT) interaction site; other site 1042878019942 biotinylation site [posttranslational modification]; other site 1042878019943 Carboxyl transferase domain; Region: Carboxyl_trans; pfam01039 1042878019944 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1042878019945 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1042878019946 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878019947 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878019948 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878019949 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878019950 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878019951 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 1042878019952 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 1042878019953 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1042878019954 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1042878019955 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042878019956 MULE transposase domain; Region: MULE; pfam10551 1042878019957 Homeodomain-like domain; Region: HTH_23; pfam13384 1042878019958 Winged helix-turn helix; Region: HTH_29; pfam13551 1042878019959 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1042878019960 active site 1042878019961 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878019962 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878019963 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 1042878019964 substrate binding pocket [chemical binding]; other site 1042878019965 dimerization interface [polypeptide binding]; other site 1042878019966 Flavin Reductases; Region: FlaRed; cl00801 1042878019967 4-hydroxyphenylacetate 3-hydroxylase N terminal; Region: HpaB_N; pfam11794 1042878019968 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878019969 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 1042878019970 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 1042878019971 putative FMN binding site [chemical binding]; other site 1042878019972 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 1042878019973 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 1042878019974 dimer interface [polypeptide binding]; other site 1042878019975 active site 1042878019976 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1042878019977 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1042878019978 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 1042878019979 active site 1042878019980 dimer interface [polypeptide binding]; other site 1042878019981 metal binding site [ion binding]; metal-binding site 1042878019982 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 1042878019983 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878019984 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878019985 non-specific DNA binding site [nucleotide binding]; other site 1042878019986 salt bridge; other site 1042878019987 sequence-specific DNA binding site [nucleotide binding]; other site 1042878019988 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1042878019989 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1042878019990 active site 1042878019991 non-prolyl cis peptide bond; other site 1042878019992 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 1042878019993 putative substrate binding pocket [chemical binding]; other site 1042878019994 AC domain interface; other site 1042878019995 catalytic triad [active] 1042878019996 AB domain interface; other site 1042878019997 interchain disulfide; other site 1042878019998 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878019999 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1042878020000 substrate binding pocket [chemical binding]; other site 1042878020001 dimerization interface [polypeptide binding]; other site 1042878020002 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 1042878020003 Int/Topo IB signature motif; other site 1042878020004 His-Xaa-Ser system putative quinone modification maturase; Region: SAM_quin_mod; TIGR03981 1042878020005 RNA polymerase sigma factor; Provisional; Region: PRK11922 1042878020006 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878020007 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042878020008 DNA binding residues [nucleotide binding] 1042878020009 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1042878020010 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1042878020011 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cd00322 1042878020012 FAD binding pocket [chemical binding]; other site 1042878020013 conserved FAD binding motif [chemical binding]; other site 1042878020014 phosphate binding motif [ion binding]; other site 1042878020015 beta-alpha-beta structure motif; other site 1042878020016 NAD binding pocket [chemical binding]; other site 1042878020017 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1042878020018 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1042878020019 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1042878020020 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1042878020021 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878020022 NAD(P) binding site [chemical binding]; other site 1042878020023 active site 1042878020024 SnoaL-like domain; Region: SnoaL_2; pfam12680 1042878020025 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878020026 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878020027 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878020028 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878020029 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878020030 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878020031 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878020032 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 1042878020033 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 1042878020034 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878020035 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1042878020036 acyl-activating enzyme (AAE) consensus motif; other site 1042878020037 AMP binding site [chemical binding]; other site 1042878020038 active site 1042878020039 CoA binding site [chemical binding]; other site 1042878020040 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 1042878020041 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 1042878020042 acetyl-CoA acetyltransferase; Provisional; Region: PRK06289 1042878020043 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1042878020044 active site 1042878020045 enoyl-CoA hydratase; Provisional; Region: PRK06688 1042878020046 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878020047 substrate binding site [chemical binding]; other site 1042878020048 oxyanion hole (OAH) forming residues; other site 1042878020049 trimer interface [polypeptide binding]; other site 1042878020050 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878020051 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878020052 NAD(P) binding site [chemical binding]; other site 1042878020053 active site 1042878020054 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878020055 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878020056 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878020057 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878020058 trimer interface [polypeptide binding]; other site 1042878020059 eyelet of channel; other site 1042878020060 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1042878020061 putative active site [active] 1042878020062 putative substrate binding site [chemical binding]; other site 1042878020063 ATP binding site [chemical binding]; other site 1042878020064 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042878020065 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878020066 substrate binding site [chemical binding]; other site 1042878020067 oxyanion hole (OAH) forming residues; other site 1042878020068 trimer interface [polypeptide binding]; other site 1042878020069 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 1042878020070 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1042878020071 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042878020072 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878020073 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1042878020074 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1042878020075 Amidohydrolase; Region: Amidohydro_2; pfam04909 1042878020076 enoyl-CoA hydratase; Provisional; Region: PRK08140 1042878020077 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878020078 substrate binding site [chemical binding]; other site 1042878020079 oxyanion hole (OAH) forming residues; other site 1042878020080 trimer interface [polypeptide binding]; other site 1042878020081 Cupin domain; Region: Cupin_2; cl17218 1042878020082 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042878020083 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878020084 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1042878020085 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1042878020086 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1042878020087 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1042878020088 Ligand binding site [chemical binding]; other site 1042878020089 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1042878020090 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1042878020091 putative FMN binding site [chemical binding]; other site 1042878020092 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 1042878020093 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 1042878020094 acyl-activating enzyme (AAE) consensus motif; other site 1042878020095 putative AMP binding site [chemical binding]; other site 1042878020096 putative active site [active] 1042878020097 putative CoA binding site [chemical binding]; other site 1042878020098 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1042878020099 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042878020100 putative NAD(P) binding site [chemical binding]; other site 1042878020101 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1042878020102 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042878020103 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 1042878020104 active site 1042878020105 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878020106 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1042878020107 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878020108 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878020109 SnoaL-like domain; Region: SnoaL_2; pfam12680 1042878020110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878020111 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1042878020112 NAD(P) binding site [chemical binding]; other site 1042878020113 active site 1042878020114 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 1042878020115 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042878020116 putative active site [active] 1042878020117 putative FMN binding site [chemical binding]; other site 1042878020118 putative substrate binding site [chemical binding]; other site 1042878020119 putative catalytic residue [active] 1042878020120 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1042878020121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878020122 NAD(P) binding site [chemical binding]; other site 1042878020123 active site 1042878020124 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 1042878020125 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878020126 dimer interface [polypeptide binding]; other site 1042878020127 active site 1042878020128 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878020129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878020130 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878020131 NAD(P) binding site [chemical binding]; other site 1042878020132 active site 1042878020133 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1042878020134 Phosphotransferase enzyme family; Region: APH; pfam01636 1042878020135 putative active site [active] 1042878020136 putative substrate binding site [chemical binding]; other site 1042878020137 ATP binding site [chemical binding]; other site 1042878020138 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1042878020139 substrate binding site [chemical binding]; other site 1042878020140 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878020141 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878020142 active site 1042878020143 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1042878020144 Amidohydrolase; Region: Amidohydro_5; pfam13594 1042878020145 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042878020146 active site 1042878020147 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1042878020148 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1042878020149 dimer interface [polypeptide binding]; other site 1042878020150 PYR/PP interface [polypeptide binding]; other site 1042878020151 TPP binding site [chemical binding]; other site 1042878020152 substrate binding site [chemical binding]; other site 1042878020153 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1042878020154 TPP-binding site [chemical binding]; other site 1042878020155 SnoaL-like domain; Region: SnoaL_2; pfam12680 1042878020156 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 1042878020157 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1042878020158 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1042878020159 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1042878020160 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1042878020161 Chromo Shadow Domain, found in association with N-terminal chromo (CHRromatin Organization MOdifier) domain; Chromo domains mediate the interaction of the heterochromatin with other heterochromatin proteins, thereby affecting chromatin structure (e.g; Region: ChSh; cl00044 1042878020162 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1042878020163 Amidohydrolase; Region: Amidohydro_2; pfam04909 1042878020164 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1042878020165 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1042878020166 dimer interface [polypeptide binding]; other site 1042878020167 PYR/PP interface [polypeptide binding]; other site 1042878020168 TPP binding site [chemical binding]; other site 1042878020169 substrate binding site [chemical binding]; other site 1042878020170 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1042878020171 TPP-binding site [chemical binding]; other site 1042878020172 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1042878020173 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042878020174 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878020175 substrate binding site [chemical binding]; other site 1042878020176 oxyanion hole (OAH) forming residues; other site 1042878020177 trimer interface [polypeptide binding]; other site 1042878020178 enoyl-CoA hydratase; Provisional; Region: PRK08252 1042878020179 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878020180 substrate binding site [chemical binding]; other site 1042878020181 oxyanion hole (OAH) forming residues; other site 1042878020182 trimer interface [polypeptide binding]; other site 1042878020183 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878020184 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878020185 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878020186 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1042878020187 active site 1042878020188 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878020189 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878020190 active site 1042878020191 hypothetical protein; Validated; Region: PRK07121 1042878020192 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1042878020193 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1042878020194 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 1042878020195 4Fe-4S binding domain; Region: Fer4; cl02805 1042878020196 4Fe-4S binding domain; Region: Fer4; pfam00037 1042878020197 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1042878020198 FAD binding pocket [chemical binding]; other site 1042878020199 conserved FAD binding motif [chemical binding]; other site 1042878020200 phosphate binding motif [ion binding]; other site 1042878020201 beta-alpha-beta structure motif; other site 1042878020202 NAD binding pocket [chemical binding]; other site 1042878020203 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1042878020204 Cytochrome P450; Region: p450; cl12078 1042878020205 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1042878020206 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1042878020207 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1042878020208 Trp docking motif [polypeptide binding]; other site 1042878020209 active site 1042878020210 short chain dehydrogenase; Provisional; Region: PRK06172 1042878020211 classical (c) SDRs; Region: SDR_c; cd05233 1042878020212 NAD(P) binding site [chemical binding]; other site 1042878020213 active site 1042878020214 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042878020215 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878020216 substrate binding site [chemical binding]; other site 1042878020217 oxyanion hole (OAH) forming residues; other site 1042878020218 trimer interface [polypeptide binding]; other site 1042878020219 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1042878020220 thiolase; Provisional; Region: PRK06158 1042878020221 active site 1042878020222 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1042878020223 DUF35 OB-fold domain; Region: DUF35; pfam01796 1042878020224 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1042878020225 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1042878020226 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1042878020227 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 1042878020228 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1042878020229 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878020230 FeS/SAM binding site; other site 1042878020231 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1042878020232 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878020233 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878020234 putative substrate translocation pore; other site 1042878020235 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1042878020236 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1042878020237 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1042878020238 Na binding site [ion binding]; other site 1042878020239 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1042878020240 Na binding site [ion binding]; other site 1042878020241 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878020242 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878020243 dimer interface [polypeptide binding]; other site 1042878020244 phosphorylation site [posttranslational modification] 1042878020245 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878020246 ATP binding site [chemical binding]; other site 1042878020247 Mg2+ binding site [ion binding]; other site 1042878020248 G-X-G motif; other site 1042878020249 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878020250 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878020251 active site 1042878020252 phosphorylation site [posttranslational modification] 1042878020253 intermolecular recognition site; other site 1042878020254 dimerization interface [polypeptide binding]; other site 1042878020255 PAS domain; Region: PAS_9; pfam13426 1042878020256 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1042878020257 active site 1042878020258 catalytic site [active] 1042878020259 substrate binding site [chemical binding]; other site 1042878020260 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1042878020261 metal binding triad; other site 1042878020262 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 1042878020263 acetyl-CoA synthetase; Provisional; Region: PRK00174 1042878020264 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878020265 acyl-activating enzyme (AAE) consensus motif; other site 1042878020266 active site 1042878020267 AMP binding site [chemical binding]; other site 1042878020268 CoA binding site [chemical binding]; other site 1042878020269 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1042878020270 Phasin protein; Region: Phasin_2; cl11491 1042878020271 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1042878020272 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878020273 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878020274 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878020275 Homeodomain-like domain; Region: HTH_23; pfam13384 1042878020276 Winged helix-turn helix; Region: HTH_29; pfam13551 1042878020277 Homeodomain-like domain; Region: HTH_32; pfam13565 1042878020278 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1042878020279 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1042878020280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 1042878020281 Putative glucoamylase; Region: Glycoamylase; pfam10091 1042878020282 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878020283 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878020284 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878020285 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 1042878020286 metal binding site [ion binding]; metal-binding site 1042878020287 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878020288 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878020289 non-specific DNA binding site [nucleotide binding]; other site 1042878020290 salt bridge; other site 1042878020291 sequence-specific DNA binding site [nucleotide binding]; other site 1042878020292 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1042878020293 active site 2 [active] 1042878020294 active site 1 [active] 1042878020295 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878020296 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1042878020297 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1042878020298 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1042878020299 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1042878020300 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1042878020301 Ligand binding site [chemical binding]; other site 1042878020302 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1042878020303 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042878020304 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878020305 DNA-binding site [nucleotide binding]; DNA binding site 1042878020306 FCD domain; Region: FCD; pfam07729 1042878020307 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878020308 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878020309 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878020310 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878020311 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 1042878020312 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1042878020313 active site 1042878020314 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 1042878020315 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1042878020316 DUF35 OB-fold domain; Region: DUF35; pfam01796 1042878020317 putative succinate dehydrogenase; Reviewed; Region: PRK12842 1042878020318 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042878020319 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1042878020320 NIPSNAP; Region: NIPSNAP; pfam07978 1042878020321 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878020322 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878020323 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878020324 active site 1042878020325 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1042878020326 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1042878020327 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042878020328 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878020329 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878020330 trimer interface [polypeptide binding]; other site 1042878020331 eyelet of channel; other site 1042878020332 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878020333 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878020334 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878020335 Uncharacterized conserved small protein [Function unknown]; Region: COG5639 1042878020336 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1042878020337 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1042878020338 VirB7 interaction site; other site 1042878020339 conjugal transfer protein TrbF; Provisional; Region: PRK13872 1042878020340 conjugal transfer protein TrbL; Provisional; Region: PRK13875 1042878020341 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 1042878020342 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 1042878020343 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 1042878020344 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1042878020345 AAA-like domain; Region: AAA_10; pfam12846 1042878020346 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1042878020347 Walker A motif; other site 1042878020348 ATP binding site [chemical binding]; other site 1042878020349 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1042878020350 Type IV secretory pathway, TrbD component [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TrbD; COG5268 1042878020351 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1042878020352 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1042878020353 Walker B motif; other site 1042878020354 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 1042878020355 Winged helix-turn helix; Region: HTH_29; pfam13551 1042878020356 Homeodomain-like domain; Region: HTH_32; pfam13565 1042878020357 Integrase core domain; Region: rve; pfam00665 1042878020358 Integrase core domain; Region: rve_3; pfam13683 1042878020359 Transposase; Region: HTH_Tnp_1; cl17663 1042878020360 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 1042878020361 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1042878020362 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1042878020363 potential catalytic triad [active] 1042878020364 conserved cys residue [active] 1042878020365 short chain dehydrogenase; Provisional; Region: PRK06180 1042878020366 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1042878020367 NADP binding site [chemical binding]; other site 1042878020368 active site 1042878020369 steroid binding site; other site 1042878020370 Cupin; Region: Cupin_6; pfam12852 1042878020371 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042878020372 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1042878020373 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1042878020374 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1042878020375 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878020376 catalytic loop [active] 1042878020377 iron binding site [ion binding]; other site 1042878020378 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042878020379 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1042878020380 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042878020381 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878020382 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1042878020383 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1042878020384 nucleophile elbow; other site 1042878020385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878020386 NAD(P) binding site [chemical binding]; other site 1042878020387 active site 1042878020388 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042878020389 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042878020390 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878020391 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1042878020392 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878020393 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878020394 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878020395 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1042878020396 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878020397 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878020398 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878020399 active site 1042878020400 AAA ATPase domain; Region: AAA_16; pfam13191 1042878020401 AAA domain; Region: AAA_22; pfam13401 1042878020402 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878020403 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878020404 DNA binding residues [nucleotide binding] 1042878020405 dimerization interface [polypeptide binding]; other site 1042878020406 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042878020407 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878020408 substrate binding site [chemical binding]; other site 1042878020409 oxyanion hole (OAH) forming residues; other site 1042878020410 trimer interface [polypeptide binding]; other site 1042878020411 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1042878020412 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878020413 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1042878020414 putative active site [active] 1042878020415 putative CoA binding site [chemical binding]; other site 1042878020416 putative AMP binding site [chemical binding]; other site 1042878020417 acetyl-CoA acetyltransferase; Provisional; Region: PRK06066 1042878020418 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1042878020419 acetyl-CoA acetyltransferase; Provisional; Region: PRK08313 1042878020420 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1042878020421 active site 1042878020422 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1042878020423 DUF35 OB-fold domain; Region: DUF35; pfam01796 1042878020424 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 1042878020425 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1042878020426 DUF35 OB-fold domain; Region: DUF35; pfam01796 1042878020427 acyl-CoA synthetase; Validated; Region: PRK06188 1042878020428 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878020429 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1042878020430 putative AMP binding site [chemical binding]; other site 1042878020431 putative active site [active] 1042878020432 acyl-activating enzyme (AAE) consensus motif; other site 1042878020433 putative CoA binding site [chemical binding]; other site 1042878020434 lipid-transfer protein; Provisional; Region: PRK08256 1042878020435 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1042878020436 active site 1042878020437 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1042878020438 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1042878020439 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1042878020440 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1042878020441 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878020442 catalytic loop [active] 1042878020443 iron binding site [ion binding]; other site 1042878020444 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042878020445 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878020446 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1042878020447 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042878020448 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878020449 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878020450 enoyl-CoA hydratase; Provisional; Region: PRK06688 1042878020451 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878020452 substrate binding site [chemical binding]; other site 1042878020453 oxyanion hole (OAH) forming residues; other site 1042878020454 trimer interface [polypeptide binding]; other site 1042878020455 short chain dehydrogenase; Provisional; Region: PRK07576 1042878020456 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 1042878020457 NAD(P) binding site [chemical binding]; other site 1042878020458 substrate binding site [chemical binding]; other site 1042878020459 homotetramer interface [polypeptide binding]; other site 1042878020460 active site 1042878020461 homodimer interface [polypeptide binding]; other site 1042878020462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1042878020463 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1042878020464 Transposase; Region: HTH_Tnp_1; cl17663 1042878020465 Winged helix-turn helix; Region: HTH_29; pfam13551 1042878020466 Integrase core domain; Region: rve; pfam00665 1042878020467 Integrase core domain; Region: rve_3; pfam13683 1042878020468 Integrase core domain; Region: rve; pfam00665 1042878020469 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878020470 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878020471 non-specific DNA binding site [nucleotide binding]; other site 1042878020472 salt bridge; other site 1042878020473 sequence-specific DNA binding site [nucleotide binding]; other site 1042878020474 ProQ/FINO family; Region: ProQ; pfam04352 1042878020475 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 1042878020476 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878020477 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1042878020478 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878020479 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878020480 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 1042878020481 NAD(P) binding site [chemical binding]; other site 1042878020482 catalytic residues [active] 1042878020483 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1042878020484 tricarballylate dehydrogenase; Validated; Region: PRK08274 1042878020485 L-aspartate oxidase; Provisional; Region: PRK06175 1042878020486 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878020487 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1042878020488 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878020489 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878020490 TM-ABC transporter signature motif; other site 1042878020491 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878020492 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878020493 TM-ABC transporter signature motif; other site 1042878020494 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878020495 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878020496 Walker A/P-loop; other site 1042878020497 ATP binding site [chemical binding]; other site 1042878020498 Q-loop/lid; other site 1042878020499 ABC transporter signature motif; other site 1042878020500 Walker B; other site 1042878020501 D-loop; other site 1042878020502 H-loop/switch region; other site 1042878020503 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878020504 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878020505 Walker A/P-loop; other site 1042878020506 ATP binding site [chemical binding]; other site 1042878020507 Q-loop/lid; other site 1042878020508 ABC transporter signature motif; other site 1042878020509 Walker B; other site 1042878020510 D-loop; other site 1042878020511 H-loop/switch region; other site 1042878020512 aconitate hydratase; Validated; Region: PRK09277 1042878020513 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1042878020514 substrate binding site [chemical binding]; other site 1042878020515 ligand binding site [chemical binding]; other site 1042878020516 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 1042878020517 substrate binding site [chemical binding]; other site 1042878020518 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878020519 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878020520 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 1042878020521 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1042878020522 active site 1042878020523 citrylCoA binding site [chemical binding]; other site 1042878020524 oxalacetate binding site [chemical binding]; other site 1042878020525 coenzyme A binding site [chemical binding]; other site 1042878020526 catalytic triad [active] 1042878020527 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1042878020528 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1042878020529 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1042878020530 Walker A/P-loop; other site 1042878020531 ATP binding site [chemical binding]; other site 1042878020532 Q-loop/lid; other site 1042878020533 ABC transporter signature motif; other site 1042878020534 Walker B; other site 1042878020535 D-loop; other site 1042878020536 H-loop/switch region; other site 1042878020537 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1042878020538 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1042878020539 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878020540 TM-ABC transporter signature motif; other site 1042878020541 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878020542 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878020543 trimer interface [polypeptide binding]; other site 1042878020544 eyelet of channel; other site 1042878020545 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1042878020546 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1042878020547 ligand binding site [chemical binding]; other site 1042878020548 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 1042878020549 classical (c) SDRs; Region: SDR_c; cd05233 1042878020550 NAD(P) binding site [chemical binding]; other site 1042878020551 active site 1042878020552 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1042878020553 putative transporter; Provisional; Region: PRK12382 1042878020554 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878020555 putative substrate translocation pore; other site 1042878020556 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878020557 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878020558 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1042878020559 putative effector binding pocket; other site 1042878020560 putative dimerization interface [polypeptide binding]; other site 1042878020561 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1042878020562 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878020563 putative substrate translocation pore; other site 1042878020564 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1042878020565 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1042878020566 putative NAD(P) binding site [chemical binding]; other site 1042878020567 putative substrate binding site [chemical binding]; other site 1042878020568 catalytic Zn binding site [ion binding]; other site 1042878020569 structural Zn binding site [ion binding]; other site 1042878020570 dimer interface [polypeptide binding]; other site 1042878020571 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1042878020572 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878020573 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042878020574 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878020575 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042878020576 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1042878020577 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878020578 catalytic loop [active] 1042878020579 iron binding site [ion binding]; other site 1042878020580 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042878020581 Transmembrane secretion effector; Region: MFS_3; pfam05977 1042878020582 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878020583 putative substrate translocation pore; other site 1042878020584 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878020585 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878020586 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878020587 putative effector binding pocket; other site 1042878020588 dimerization interface [polypeptide binding]; other site 1042878020589 tricarballylate dehydrogenase; Validated; Region: PRK08274 1042878020590 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1042878020591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878020592 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1042878020593 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878020594 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1042878020595 YciI-like protein; Reviewed; Region: PRK12863 1042878020596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878020597 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042878020598 NAD(P) binding site [chemical binding]; other site 1042878020599 active site 1042878020600 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878020601 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1042878020602 putative active site [active] 1042878020603 putative metal binding site [ion binding]; other site 1042878020604 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1042878020605 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1042878020606 CoA binding domain; Region: CoA_binding_2; pfam13380 1042878020607 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1042878020608 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1042878020609 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1042878020610 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878020611 catalytic loop [active] 1042878020612 iron binding site [ion binding]; other site 1042878020613 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 1042878020614 FAD binding pocket [chemical binding]; other site 1042878020615 FAD binding motif [chemical binding]; other site 1042878020616 phosphate binding motif [ion binding]; other site 1042878020617 beta-alpha-beta structure motif; other site 1042878020618 NAD binding pocket [chemical binding]; other site 1042878020619 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878020620 substrate binding site [chemical binding]; other site 1042878020621 oxyanion hole (OAH) forming residues; other site 1042878020622 trimer interface [polypeptide binding]; other site 1042878020623 enoyl-CoA hydratase; Provisional; Region: PRK09245 1042878020624 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878020625 substrate binding site [chemical binding]; other site 1042878020626 oxyanion hole (OAH) forming residues; other site 1042878020627 trimer interface [polypeptide binding]; other site 1042878020628 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 1042878020629 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878020630 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878020631 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878020632 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878020633 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878020634 NAD(P) binding site [chemical binding]; other site 1042878020635 active site 1042878020636 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1042878020637 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1042878020638 DUF35 OB-fold domain; Region: DUF35; pfam01796 1042878020639 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 1042878020640 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1042878020641 active site 1042878020642 Rubredoxin [Energy production and conversion]; Region: COG1773 1042878020643 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1042878020644 iron binding site [ion binding]; other site 1042878020645 tricarballylate dehydrogenase; Validated; Region: PRK08274 1042878020646 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1042878020647 tricarballylate utilization protein B; Provisional; Region: PRK15033 1042878020648 choline dehydrogenase; Validated; Region: PRK02106 1042878020649 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878020650 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1042878020651 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878020652 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878020653 trimer interface [polypeptide binding]; other site 1042878020654 eyelet of channel; other site 1042878020655 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1042878020656 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878020657 substrate binding site [chemical binding]; other site 1042878020658 oxyanion hole (OAH) forming residues; other site 1042878020659 trimer interface [polypeptide binding]; other site 1042878020660 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042878020661 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042878020662 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042878020663 Rubredoxin [Energy production and conversion]; Region: COG1773 1042878020664 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1042878020665 iron binding site [ion binding]; other site 1042878020666 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1042878020667 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1042878020668 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878020669 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042878020670 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878020671 NAD(P) binding site [chemical binding]; other site 1042878020672 catalytic residues [active] 1042878020673 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878020674 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1042878020675 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878020676 NAD(P) binding site [chemical binding]; other site 1042878020677 active site 1042878020678 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878020679 choline dehydrogenase; Validated; Region: PRK02106 1042878020680 lycopene cyclase; Region: lycopene_cycl; TIGR01789 1042878020681 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1042878020682 Double zinc ribbon; Region: DZR; pfam12773 1042878020683 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1042878020684 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1042878020685 cyclase homology domain; Region: CHD; cd07302 1042878020686 nucleotidyl binding site; other site 1042878020687 metal binding site [ion binding]; metal-binding site 1042878020688 dimer interface [polypeptide binding]; other site 1042878020689 AAA ATPase domain; Region: AAA_16; pfam13191 1042878020690 Predicted ATPase [General function prediction only]; Region: COG3899 1042878020691 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1042878020692 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1042878020693 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 1042878020694 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878020695 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1042878020696 putative dimerization interface [polypeptide binding]; other site 1042878020697 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042878020698 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878020699 NAD(P) binding site [chemical binding]; other site 1042878020700 catalytic residues [active] 1042878020701 choline dehydrogenase; Validated; Region: PRK02106 1042878020702 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1042878020703 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878020704 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 1042878020705 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1042878020706 Integrase core domain; Region: rve; pfam00665 1042878020707 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1042878020708 Bacterial TniB protein; Region: TniB; pfam05621 1042878020709 AAA domain; Region: AAA_22; pfam13401 1042878020710 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878020711 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878020712 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878020713 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878020714 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878020715 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878020716 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1042878020717 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 1042878020718 putative active site [active] 1042878020719 catalytic triad [active] 1042878020720 putative dimer interface [polypeptide binding]; other site 1042878020721 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878020722 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878020723 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878020724 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878020725 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042878020726 dimerization interface [polypeptide binding]; other site 1042878020727 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878020728 putative substrate translocation pore; other site 1042878020729 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1042878020730 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 1042878020731 putative active site [active] 1042878020732 catalytic triad [active] 1042878020733 putative dimer interface [polypeptide binding]; other site 1042878020734 putative transposase OrfB; Reviewed; Region: PHA02517 1042878020735 HTH-like domain; Region: HTH_21; pfam13276 1042878020736 Integrase core domain; Region: rve; pfam00665 1042878020737 Integrase core domain; Region: rve_3; pfam13683 1042878020738 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042878020739 Transposase; Region: HTH_Tnp_1; cl17663 1042878020740 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878020741 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878020742 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1042878020743 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 1042878020744 putative active site [active] 1042878020745 catalytic triad [active] 1042878020746 putative dimer interface [polypeptide binding]; other site 1042878020747 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1042878020748 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1042878020749 Na binding site [ion binding]; other site 1042878020750 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1042878020751 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878020752 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878020753 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1042878020754 dimerization interface [polypeptide binding]; other site 1042878020755 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042878020756 MULE transposase domain; Region: MULE; pfam10551 1042878020757 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 1042878020758 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 1042878020759 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1042878020760 putative NAD(P) binding site [chemical binding]; other site 1042878020761 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878020762 salt bridge; other site 1042878020763 non-specific DNA binding site [nucleotide binding]; other site 1042878020764 conjugal transfer protein TrbA; Provisional; Region: PRK13890 1042878020765 sequence-specific DNA binding site [nucleotide binding]; other site 1042878020766 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1042878020767 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1042878020768 conserved cys residue [active] 1042878020769 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1042878020770 conserved cys residue [active] 1042878020771 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1042878020772 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1042878020773 conserved cys residue [active] 1042878020774 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878020775 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1042878020776 Double zinc ribbon; Region: DZR; pfam12773 1042878020777 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1042878020778 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1042878020779 cyclase homology domain; Region: CHD; cd07302 1042878020780 nucleotidyl binding site; other site 1042878020781 metal binding site [ion binding]; metal-binding site 1042878020782 dimer interface [polypeptide binding]; other site 1042878020783 AAA ATPase domain; Region: AAA_16; pfam13191 1042878020784 Predicted ATPase [General function prediction only]; Region: COG3899 1042878020785 Predicted ATPase [General function prediction only]; Region: COG3903 1042878020786 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 1042878020787 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878020788 DNA-binding site [nucleotide binding]; DNA binding site 1042878020789 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878020790 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878020791 homodimer interface [polypeptide binding]; other site 1042878020792 catalytic residue [active] 1042878020793 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1042878020794 conserved cys residue [active] 1042878020795 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 1042878020796 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 1042878020797 metal binding site [ion binding]; metal-binding site 1042878020798 dimer interface [polypeptide binding]; other site 1042878020799 Protein of unknown function, DUF485; Region: DUF485; cl01231 1042878020800 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1042878020801 Na binding site [ion binding]; other site 1042878020802 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1042878020803 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 1042878020804 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878020805 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042878020806 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878020807 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1042878020808 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1042878020809 oligomeric interface; other site 1042878020810 homodimer interface [polypeptide binding]; other site 1042878020811 putative active site [active] 1042878020812 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 1042878020813 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1042878020814 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1042878020815 H-NS histone family; Region: Histone_HNS; pfam00816 1042878020816 Replication factor RFC1 C terminal domain; Region: RFC1; pfam08519 1042878020817 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1042878020818 RES domain; Region: RES; pfam08808 1042878020819 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042878020820 MULE transposase domain; Region: MULE; pfam10551 1042878020821 Transposase; Region: HTH_Tnp_1; cl17663 1042878020822 Winged helix-turn helix; Region: HTH_29; pfam13551 1042878020823 Homeodomain-like domain; Region: HTH_32; pfam13565 1042878020824 Integrase core domain; Region: rve; pfam00665 1042878020825 Integrase core domain; Region: rve_3; pfam13683 1042878020826 valyl-tRNA synthetase; Provisional; Region: valS; PRK14900 1042878020827 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 1042878020828 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1042878020829 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1042878020830 H-NS histone family; Region: Histone_HNS; pfam00816 1042878020831 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1042878020832 H-NS histone family; Region: Histone_HNS; pfam00816 1042878020833 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 1042878020834 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1042878020835 putative transposase OrfB; Reviewed; Region: PHA02517 1042878020836 Integrase core domain; Region: rve; pfam00665 1042878020837 Integrase core domain; Region: rve_3; pfam13683 1042878020838 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042878020839 Transposase; Region: HTH_Tnp_1; pfam01527 1042878020840 FRG domain; Region: FRG; pfam08867 1042878020841 YfbU domain; Region: YfbU; cl01137 1042878020842 Transposase; Region: HTH_Tnp_1; cl17663 1042878020843 Winged helix-turn helix; Region: HTH_29; pfam13551 1042878020844 Homeodomain-like domain; Region: HTH_32; pfam13565 1042878020845 Integrase core domain; Region: rve; pfam00665 1042878020846 Integrase core domain; Region: rve_3; pfam13683 1042878020847 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878020848 classical (c) SDRs; Region: SDR_c; cd05233 1042878020849 NAD(P) binding site [chemical binding]; other site 1042878020850 active site 1042878020851 hypothetical protein; Validated; Region: PRK07121 1042878020852 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1042878020853 EthD domain; Region: EthD; cl17553 1042878020854 AAA ATPase domain; Region: AAA_16; pfam13191 1042878020855 Archaeal ATPase; Region: Arch_ATPase; pfam01637 1042878020856 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 1042878020857 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 1042878020858 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042878020859 MULE transposase domain; Region: MULE; pfam10551 1042878020860 H-NS histone family; Region: Histone_HNS; pfam00816 1042878020861 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1042878020862 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 1042878020863 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1042878020864 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1042878020865 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1042878020866 Transposase domain (DUF772); Region: DUF772; pfam05598 1042878020867 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1042878020868 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1042878020869 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042878020870 Transposase; Region: HTH_Tnp_1; pfam01527 1042878020871 putative transposase OrfB; Reviewed; Region: PHA02517 1042878020872 Integrase core domain; Region: rve; pfam00665 1042878020873 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042878020874 MULE transposase domain; Region: MULE; pfam10551 1042878020875 Integrase core domain; Region: rve_3; pfam13683 1042878020876 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1042878020877 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042878020878 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1042878020879 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1042878020880 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1042878020881 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1042878020882 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042878020883 Transposase; Region: HTH_Tnp_1; pfam01527 1042878020884 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042878020885 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1042878020886 Peptidase family U32; Region: Peptidase_U32; cl03113 1042878020887 SCP-2 sterol transfer family; Region: SCP2; cl01225 1042878020888 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878020889 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878020890 putative substrate translocation pore; other site 1042878020891 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1042878020892 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1042878020893 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878020894 NAD binding site [chemical binding]; other site 1042878020895 catalytic residues [active] 1042878020896 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1042878020897 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1042878020898 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1042878020899 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878020900 DNA-binding site [nucleotide binding]; DNA binding site 1042878020901 UTRA domain; Region: UTRA; pfam07702 1042878020902 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 1042878020903 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 1042878020904 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 1042878020905 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042878020906 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1042878020907 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1042878020908 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1042878020909 conserved cys residue [active] 1042878020910 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1042878020911 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878020912 non-specific DNA binding site [nucleotide binding]; other site 1042878020913 salt bridge; other site 1042878020914 sequence-specific DNA binding site [nucleotide binding]; other site 1042878020915 Cupin domain; Region: Cupin_2; pfam07883 1042878020916 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878020917 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042878020918 putative substrate translocation pore; other site 1042878020919 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1042878020920 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1042878020921 DNA binding domain, excisionase family; Region: excise; TIGR01764 1042878020922 PIN domain; Region: PIN_3; pfam13470 1042878020923 Calcium binding; Region: Calci_bind_CcbP; pfam11535 1042878020924 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 1042878020925 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 1042878020926 AAA domain; Region: AAA_23; pfam13476 1042878020927 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1042878020928 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1042878020929 Integrase core domain; Region: rve; pfam00665 1042878020930 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878020931 Walker A motif; other site 1042878020932 ATP binding site [chemical binding]; other site 1042878020933 Walker B motif; other site 1042878020934 putative transposase OrfB; Reviewed; Region: PHA02517 1042878020935 Integrase core domain; Region: rve; pfam00665 1042878020936 Integrase core domain; Region: rve_3; pfam13683 1042878020937 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042878020938 Transposase; Region: HTH_Tnp_1; pfam01527 1042878020939 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1042878020940 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 1042878020941 RNA polymerase sigma factor; Provisional; Region: PRK12512 1042878020942 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878020943 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042878020944 DNA binding residues [nucleotide binding] 1042878020945 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 1042878020946 hypothetical protein; Provisional; Region: PRK05409 1042878020947 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 1042878020948 DoxX; Region: DoxX; pfam07681 1042878020949 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1042878020950 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 1042878020951 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 1042878020952 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1042878020953 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1042878020954 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 1042878020955 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1042878020956 Helix-turn-helix domain; Region: HTH_37; pfam13744 1042878020957 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 1042878020958 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1042878020959 NAD(P) binding site [chemical binding]; other site 1042878020960 homotetramer interface [polypeptide binding]; other site 1042878020961 homodimer interface [polypeptide binding]; other site 1042878020962 active site 1042878020963 Phasin protein; Region: Phasin_2; pfam09361 1042878020964 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 1042878020965 DNA binding residues [nucleotide binding] 1042878020966 dimerization interface [polypeptide binding]; other site 1042878020967 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1042878020968 toxin ChpB; Provisional; Region: PRK09812 1042878020969 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878020970 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878020971 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042878020972 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878020973 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1042878020974 dimerization interface [polypeptide binding]; other site 1042878020975 substrate binding pocket [chemical binding]; other site 1042878020976 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878020977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878020978 NAD(P) binding site [chemical binding]; other site 1042878020979 active site 1042878020980 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878020981 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878020982 putative substrate translocation pore; other site 1042878020983 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 1042878020984 TPP-binding site [chemical binding]; other site 1042878020985 dimer interface [polypeptide binding]; other site 1042878020986 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1042878020987 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1042878020988 PYR/PP interface [polypeptide binding]; other site 1042878020989 dimer interface [polypeptide binding]; other site 1042878020990 TPP binding site [chemical binding]; other site 1042878020991 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1042878020992 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878020993 putative substrate translocation pore; other site 1042878020994 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878020995 Propionate catabolism activator; Region: PrpR_N; pfam06506 1042878020996 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1042878020997 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042878020998 Walker A motif; other site 1042878020999 ATP binding site [chemical binding]; other site 1042878021000 Walker B motif; other site 1042878021001 arginine finger; other site 1042878021002 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042878021003 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878021004 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042878021005 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1042878021006 NADP binding site [chemical binding]; other site 1042878021007 dimer interface [polypeptide binding]; other site 1042878021008 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1042878021009 DNA-binding site [nucleotide binding]; DNA binding site 1042878021010 RNA-binding motif; other site 1042878021011 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1042878021012 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1042878021013 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1042878021014 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1042878021015 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878021016 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1042878021017 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042878021018 DNA binding residues [nucleotide binding] 1042878021019 H-NS histone family; Region: Histone_HNS; pfam00816 1042878021020 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1042878021021 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042878021022 binding surface 1042878021023 TPR repeat; Region: TPR_11; pfam13414 1042878021024 TPR motif; other site 1042878021025 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1042878021026 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1042878021027 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1042878021028 putative DNA binding site [nucleotide binding]; other site 1042878021029 putative homodimer interface [polypeptide binding]; other site 1042878021030 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1042878021031 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1042878021032 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1042878021033 active site 1042878021034 DNA binding site [nucleotide binding] 1042878021035 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1042878021036 DNA binding site [nucleotide binding] 1042878021037 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1042878021038 nucleotide binding site [chemical binding]; other site 1042878021039 transcriptional activator TtdR; Provisional; Region: PRK09801 1042878021040 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021041 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 1042878021042 putative effector binding pocket; other site 1042878021043 putative dimerization interface [polypeptide binding]; other site 1042878021044 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1042878021045 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 1042878021046 putative active site pocket [active] 1042878021047 metal binding site [ion binding]; metal-binding site 1042878021048 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878021049 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1042878021050 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042878021051 LabA_like proteins; Region: LabA_like; cd06167 1042878021052 putative metal binding site [ion binding]; other site 1042878021053 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1042878021054 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1042878021055 generic binding surface I; other site 1042878021056 generic binding surface II; other site 1042878021057 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 1042878021058 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1042878021059 putative active site [active] 1042878021060 SNF2 Helicase protein; Region: DUF3670; pfam12419 1042878021061 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1042878021062 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1042878021063 ATP binding site [chemical binding]; other site 1042878021064 putative Mg++ binding site [ion binding]; other site 1042878021065 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042878021066 nucleotide binding region [chemical binding]; other site 1042878021067 ATP-binding site [chemical binding]; other site 1042878021068 Uncharacterized conserved protein [Function unknown]; Region: COG4279 1042878021069 SWIM zinc finger; Region: SWIM; pfam04434 1042878021070 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1042878021071 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1042878021072 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1042878021073 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1042878021074 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 1042878021075 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878021076 catalytic residue [active] 1042878021077 allantoate amidohydrolase; Reviewed; Region: PRK12893 1042878021078 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1042878021079 active site 1042878021080 metal binding site [ion binding]; metal-binding site 1042878021081 dimer interface [polypeptide binding]; other site 1042878021082 N-carbamyl-D-amino acid amidohydrolase (DCase, class 6 nitrilases); Region: DCase; cd07569 1042878021083 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1042878021084 tetramer interface [polypeptide binding]; other site 1042878021085 active site 1042878021086 catalytic triad [active] 1042878021087 dimer interface [polypeptide binding]; other site 1042878021088 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878021089 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878021090 putative substrate translocation pore; other site 1042878021091 peptidase; Reviewed; Region: PRK13004 1042878021092 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1042878021093 metal binding site [ion binding]; metal-binding site 1042878021094 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 1042878021095 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 1042878021096 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1042878021097 active site 1042878021098 catalytic site [active] 1042878021099 substrate binding site [chemical binding]; other site 1042878021100 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878021101 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1042878021102 active site 1042878021103 Int/Topo IB signature motif; other site 1042878021104 catalytic residues [active] 1042878021105 DNA binding site [nucleotide binding] 1042878021106 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 1042878021107 IHF - DNA interface [nucleotide binding]; other site 1042878021108 IHF dimer interface [polypeptide binding]; other site 1042878021109 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1042878021110 active site 1042878021111 metal binding site [ion binding]; metal-binding site 1042878021112 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1042878021113 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878021114 catalytic residue [active] 1042878021115 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878021116 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878021117 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878021118 short chain dehydrogenase; Provisional; Region: PRK07576 1042878021119 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 1042878021120 NAD(P) binding site [chemical binding]; other site 1042878021121 substrate binding site [chemical binding]; other site 1042878021122 homotetramer interface [polypeptide binding]; other site 1042878021123 active site 1042878021124 homodimer interface [polypeptide binding]; other site 1042878021125 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1042878021126 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1042878021127 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1042878021128 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 1042878021129 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 1042878021130 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1042878021131 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1042878021132 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1042878021133 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1042878021134 short chain dehydrogenase; Provisional; Region: PRK08226 1042878021135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878021136 NAD(P) binding site [chemical binding]; other site 1042878021137 active site 1042878021138 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1042878021139 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1042878021140 acyl-activating enzyme (AAE) consensus motif; other site 1042878021141 putative AMP binding site [chemical binding]; other site 1042878021142 putative active site [active] 1042878021143 putative CoA binding site [chemical binding]; other site 1042878021144 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1042878021145 AAA ATPase domain; Region: AAA_16; pfam13191 1042878021146 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878021147 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878021148 DNA binding residues [nucleotide binding] 1042878021149 dimerization interface [polypeptide binding]; other site 1042878021150 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878021151 PAS fold; Region: PAS_3; pfam08447 1042878021152 putative active site [active] 1042878021153 heme pocket [chemical binding]; other site 1042878021154 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878021155 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878021156 dimer interface [polypeptide binding]; other site 1042878021157 phosphorylation site [posttranslational modification] 1042878021158 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878021159 ATP binding site [chemical binding]; other site 1042878021160 Mg2+ binding site [ion binding]; other site 1042878021161 G-X-G motif; other site 1042878021162 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878021163 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878021164 active site 1042878021165 phosphorylation site [posttranslational modification] 1042878021166 intermolecular recognition site; other site 1042878021167 dimerization interface [polypeptide binding]; other site 1042878021168 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878021169 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878021170 active site 1042878021171 phosphorylation site [posttranslational modification] 1042878021172 intermolecular recognition site; other site 1042878021173 dimerization interface [polypeptide binding]; other site 1042878021174 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1042878021175 cyclase homology domain; Region: CHD; cd07302 1042878021176 nucleotidyl binding site; other site 1042878021177 metal binding site [ion binding]; metal-binding site 1042878021178 dimer interface [polypeptide binding]; other site 1042878021179 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 1042878021180 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042878021181 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1042878021182 NAD(P) binding site [chemical binding]; other site 1042878021183 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1042878021184 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021185 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878021186 putative effector binding pocket; other site 1042878021187 dimerization interface [polypeptide binding]; other site 1042878021188 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1042878021189 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878021190 dimer interface [polypeptide binding]; other site 1042878021191 active site 1042878021192 fatty acid oxidation complex, alpha subunit, mitochondrial; Region: fa_ox_alpha_mit; TIGR02441 1042878021193 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878021194 substrate binding site [chemical binding]; other site 1042878021195 oxyanion hole (OAH) forming residues; other site 1042878021196 trimer interface [polypeptide binding]; other site 1042878021197 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042878021198 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042878021199 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042878021200 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878021201 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878021202 active site 1042878021203 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1042878021204 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878021205 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878021206 DNA binding residues [nucleotide binding] 1042878021207 dimerization interface [polypeptide binding]; other site 1042878021208 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878021209 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1042878021210 putative ligand binding site [chemical binding]; other site 1042878021211 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 1042878021212 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1042878021213 dimer interface [polypeptide binding]; other site 1042878021214 acyl-activating enzyme (AAE) consensus motif; other site 1042878021215 putative active site [active] 1042878021216 AMP binding site [chemical binding]; other site 1042878021217 putative CoA binding site [chemical binding]; other site 1042878021218 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878021219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878021220 NAD(P) binding site [chemical binding]; other site 1042878021221 active site 1042878021222 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1042878021223 Phosphotransferase enzyme family; Region: APH; pfam01636 1042878021224 putative active site [active] 1042878021225 putative substrate binding site [chemical binding]; other site 1042878021226 ATP binding site [chemical binding]; other site 1042878021227 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1042878021228 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1042878021229 FMN binding site [chemical binding]; other site 1042878021230 substrate binding site [chemical binding]; other site 1042878021231 putative catalytic residue [active] 1042878021232 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878021233 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 1042878021234 NAD(P) binding site [chemical binding]; other site 1042878021235 catalytic residues [active] 1042878021236 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1042878021237 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1042878021238 FMN-binding pocket [chemical binding]; other site 1042878021239 flavin binding motif; other site 1042878021240 phosphate binding motif [ion binding]; other site 1042878021241 beta-alpha-beta structure motif; other site 1042878021242 NAD binding pocket [chemical binding]; other site 1042878021243 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878021244 catalytic loop [active] 1042878021245 iron binding site [ion binding]; other site 1042878021246 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1042878021247 Cytochrome P450; Region: p450; cl12078 1042878021248 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 1042878021249 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1042878021250 catalytic Zn binding site [ion binding]; other site 1042878021251 NAD binding site [chemical binding]; other site 1042878021252 structural Zn binding site [ion binding]; other site 1042878021253 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 1042878021254 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 1042878021255 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 1042878021256 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878021257 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878021258 acyl-activating enzyme (AAE) consensus motif; other site 1042878021259 AMP binding site [chemical binding]; other site 1042878021260 active site 1042878021261 CoA binding site [chemical binding]; other site 1042878021262 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878021263 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 1042878021264 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878021265 dimer interface [polypeptide binding]; other site 1042878021266 active site 1042878021267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878021268 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1042878021269 NAD(P) binding site [chemical binding]; other site 1042878021270 active site 1042878021271 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1042878021272 Histidine kinase; Region: HisKA_3; pfam07730 1042878021273 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878021274 ATP binding site [chemical binding]; other site 1042878021275 Mg2+ binding site [ion binding]; other site 1042878021276 G-X-G motif; other site 1042878021277 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878021278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021279 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1042878021280 putative dimerization interface [polypeptide binding]; other site 1042878021281 putative transposase OrfB; Reviewed; Region: PHA02517 1042878021282 Integrase core domain; Region: rve; pfam00665 1042878021283 Integrase core domain; Region: rve_3; pfam13683 1042878021284 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042878021285 Transposase; Region: HTH_Tnp_1; pfam01527 1042878021286 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1042878021287 Double zinc ribbon; Region: DZR; pfam12773 1042878021288 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1042878021289 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1042878021290 cyclase homology domain; Region: CHD; cd07302 1042878021291 nucleotidyl binding site; other site 1042878021292 metal binding site [ion binding]; metal-binding site 1042878021293 dimer interface [polypeptide binding]; other site 1042878021294 AAA ATPase domain; Region: AAA_16; pfam13191 1042878021295 Predicted ATPase [General function prediction only]; Region: COG3899 1042878021296 Predicted ATPase [General function prediction only]; Region: COG3903 1042878021297 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878021298 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878021299 trimer interface [polypeptide binding]; other site 1042878021300 eyelet of channel; other site 1042878021301 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 1042878021302 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878021303 acyl-activating enzyme (AAE) consensus motif; other site 1042878021304 AMP binding site [chemical binding]; other site 1042878021305 active site 1042878021306 CoA binding site [chemical binding]; other site 1042878021307 short chain dehydrogenase; Provisional; Region: PRK07576 1042878021308 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 1042878021309 NAD(P) binding site [chemical binding]; other site 1042878021310 substrate binding site [chemical binding]; other site 1042878021311 homotetramer interface [polypeptide binding]; other site 1042878021312 active site 1042878021313 homodimer interface [polypeptide binding]; other site 1042878021314 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1042878021315 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1042878021316 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1042878021317 carboxyltransferase (CT) interaction site; other site 1042878021318 biotinylation site [posttranslational modification]; other site 1042878021319 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042878021320 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1042878021321 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1042878021322 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1042878021323 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1042878021324 enoyl-CoA hydratase; Provisional; Region: PRK05995 1042878021325 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878021326 substrate binding site [chemical binding]; other site 1042878021327 oxyanion hole (OAH) forming residues; other site 1042878021328 trimer interface [polypeptide binding]; other site 1042878021329 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878021330 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878021331 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 1042878021332 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1042878021333 inhibitor-cofactor binding pocket; inhibition site 1042878021334 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878021335 catalytic residue [active] 1042878021336 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1042878021337 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1042878021338 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042878021339 catalytic residue [active] 1042878021340 AAA domain; Region: AAA_26; pfam13500 1042878021341 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1042878021342 biotin synthase; Region: bioB; TIGR00433 1042878021343 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042878021344 FeS/SAM binding site; other site 1042878021345 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1042878021346 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1042878021347 Cytochrome P450; Region: p450; cl12078 1042878021348 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1042878021349 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042878021350 putative C-terminal domain interface [polypeptide binding]; other site 1042878021351 putative GSH binding site (G-site) [chemical binding]; other site 1042878021352 putative dimer interface [polypeptide binding]; other site 1042878021353 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1042878021354 N-terminal domain interface [polypeptide binding]; other site 1042878021355 dimer interface [polypeptide binding]; other site 1042878021356 substrate binding pocket (H-site) [chemical binding]; other site 1042878021357 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042878021358 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 1042878021359 active site 1042878021360 FMN binding site [chemical binding]; other site 1042878021361 2,4-decadienoyl-CoA binding site; other site 1042878021362 catalytic residue [active] 1042878021363 4Fe-4S cluster binding site [ion binding]; other site 1042878021364 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1042878021365 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878021366 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1042878021367 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878021368 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878021369 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878021370 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1042878021371 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042878021372 NAD(P) binding site [chemical binding]; other site 1042878021373 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878021374 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878021375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021376 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878021377 dimerization interface [polypeptide binding]; other site 1042878021378 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878021379 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021380 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042878021381 dimerization interface [polypeptide binding]; other site 1042878021382 substrate binding pocket [chemical binding]; other site 1042878021383 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1042878021384 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878021385 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1042878021386 hypothetical protein; Validated; Region: PRK06201 1042878021387 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1042878021388 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1042878021389 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1042878021390 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 1042878021391 catalytic Zn binding site [ion binding]; other site 1042878021392 NAD binding site [chemical binding]; other site 1042878021393 structural Zn binding site [ion binding]; other site 1042878021394 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1042878021395 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 1042878021396 NAD(P) binding site [chemical binding]; other site 1042878021397 catalytic residues [active] 1042878021398 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878021399 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1042878021400 Cytochrome P450; Region: p450; cl12078 1042878021401 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1042878021402 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878021403 substrate binding site [chemical binding]; other site 1042878021404 oxyanion hole (OAH) forming residues; other site 1042878021405 trimer interface [polypeptide binding]; other site 1042878021406 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042878021407 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042878021408 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042878021409 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1042878021410 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878021411 dimer interface [polypeptide binding]; other site 1042878021412 active site 1042878021413 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1042878021414 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878021415 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878021416 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1042878021417 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1042878021418 active site 1042878021419 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878021420 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878021421 active site 1042878021422 enoyl-CoA hydratase; Provisional; Region: PRK08140 1042878021423 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 1042878021424 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1042878021425 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878021426 DNA binding residues [nucleotide binding] 1042878021427 dimerization interface [polypeptide binding]; other site 1042878021428 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878021429 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878021430 trimer interface [polypeptide binding]; other site 1042878021431 eyelet of channel; other site 1042878021432 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1042878021433 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1042878021434 phosphate binding site [ion binding]; other site 1042878021435 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878021436 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878021437 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1042878021438 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1042878021439 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 1042878021440 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878021441 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021442 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878021443 putative effector binding pocket; other site 1042878021444 dimerization interface [polypeptide binding]; other site 1042878021445 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 1042878021446 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 1042878021447 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878021448 classical (c) SDRs; Region: SDR_c; cd05233 1042878021449 NAD(P) binding site [chemical binding]; other site 1042878021450 active site 1042878021451 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1042878021452 benzoate transport; Region: 2A0115; TIGR00895 1042878021453 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878021454 putative substrate translocation pore; other site 1042878021455 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878021456 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878021457 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021458 pyruvate carboxylase; Reviewed; Region: PRK12999 1042878021459 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042878021460 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1042878021461 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1042878021462 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1042878021463 active site 1042878021464 catalytic residues [active] 1042878021465 metal binding site [ion binding]; metal-binding site 1042878021466 homodimer binding site [polypeptide binding]; other site 1042878021467 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1042878021468 carboxyltransferase (CT) interaction site; other site 1042878021469 biotinylation site [posttranslational modification]; other site 1042878021470 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042878021471 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042878021472 Walker A/P-loop; other site 1042878021473 ATP binding site [chemical binding]; other site 1042878021474 Q-loop/lid; other site 1042878021475 ABC transporter signature motif; other site 1042878021476 Walker B; other site 1042878021477 D-loop; other site 1042878021478 H-loop/switch region; other site 1042878021479 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042878021480 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878021481 dimer interface [polypeptide binding]; other site 1042878021482 conserved gate region; other site 1042878021483 putative PBP binding loops; other site 1042878021484 ABC-ATPase subunit interface; other site 1042878021485 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878021486 dimer interface [polypeptide binding]; other site 1042878021487 conserved gate region; other site 1042878021488 putative PBP binding loops; other site 1042878021489 ABC-ATPase subunit interface; other site 1042878021490 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1042878021491 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878021492 substrate binding pocket [chemical binding]; other site 1042878021493 membrane-bound complex binding site; other site 1042878021494 hinge residues; other site 1042878021495 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1042878021496 homotrimer interaction site [polypeptide binding]; other site 1042878021497 putative active site [active] 1042878021498 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1042878021499 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1042878021500 tetramer interface [polypeptide binding]; other site 1042878021501 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878021502 catalytic residue [active] 1042878021503 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1042878021504 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1042878021505 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1042878021506 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878021507 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021508 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042878021509 dimerization interface [polypeptide binding]; other site 1042878021510 substrate binding pocket [chemical binding]; other site 1042878021511 HTH-like domain; Region: HTH_21; pfam13276 1042878021512 Integrase core domain; Region: rve; pfam00665 1042878021513 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1042878021514 Helix-turn-helix domain; Region: HTH_38; pfam13936 1042878021515 Integrase core domain; Region: rve; pfam00665 1042878021516 Integrase core domain; Region: rve_3; pfam13683 1042878021517 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878021518 hypothetical protein; Validated; Region: PRK06201 1042878021519 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1042878021520 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878021521 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021522 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042878021523 dimerization interface [polypeptide binding]; other site 1042878021524 substrate binding pocket [chemical binding]; other site 1042878021525 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1042878021526 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1042878021527 aspartate aminotransferase; Provisional; Region: PRK05764 1042878021528 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878021529 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878021530 homodimer interface [polypeptide binding]; other site 1042878021531 catalytic residue [active] 1042878021532 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1042878021533 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878021534 DNA-binding site [nucleotide binding]; DNA binding site 1042878021535 UTRA domain; Region: UTRA; pfam07702 1042878021536 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878021537 enoyl-CoA hydratase; Provisional; Region: PRK06688 1042878021538 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878021539 substrate binding site [chemical binding]; other site 1042878021540 oxyanion hole (OAH) forming residues; other site 1042878021541 trimer interface [polypeptide binding]; other site 1042878021542 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878021543 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878021544 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878021545 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878021546 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878021547 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878021548 active site 1042878021549 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1042878021550 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1042878021551 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1042878021552 active site 2 [active] 1042878021553 active site 1 [active] 1042878021554 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1042878021555 pyruvate carboxylase; Reviewed; Region: PRK12999 1042878021556 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042878021557 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1042878021558 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1042878021559 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1042878021560 active site 1042878021561 catalytic residues [active] 1042878021562 metal binding site [ion binding]; metal-binding site 1042878021563 homodimer binding site [polypeptide binding]; other site 1042878021564 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1042878021565 carboxyltransferase (CT) interaction site; other site 1042878021566 biotinylation site [posttranslational modification]; other site 1042878021567 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1042878021568 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878021569 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878021570 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878021571 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021572 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1042878021573 putative dimerization interface [polypeptide binding]; other site 1042878021574 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1042878021575 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1042878021576 active site 1042878021577 Zn binding site [ion binding]; other site 1042878021578 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878021579 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 1042878021580 NAD(P) binding site [chemical binding]; other site 1042878021581 catalytic residues [active] 1042878021582 Thiamine pyrophosphate (TPP) family, ComE subfamily, TPP-binding module; composed of proteins similar to Methanococcus jannaschii sulfopyruvate decarboxylase beta subunit (ComE). M. jannaschii sulfopyruvate decarboxylase (ComDE) is a dodecamer of six...; Region: TPP_ComE; cd03372 1042878021583 sulfopyruvate decarboxylase, beta subunit; Region: sulfopy_beta; TIGR03846 1042878021584 TPP-binding site; other site 1042878021585 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042878021586 PYR/PP interface [polypeptide binding]; other site 1042878021587 dimer interface [polypeptide binding]; other site 1042878021588 TPP binding site [chemical binding]; other site 1042878021589 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 1042878021590 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021591 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1042878021592 putative dimerization interface [polypeptide binding]; other site 1042878021593 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878021594 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021595 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 1042878021596 putative dimerization interface [polypeptide binding]; other site 1042878021597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878021598 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1042878021599 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1042878021600 homotrimer interaction site [polypeptide binding]; other site 1042878021601 putative active site [active] 1042878021602 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1042878021603 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1042878021604 tetramer interface [polypeptide binding]; other site 1042878021605 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878021606 catalytic residue [active] 1042878021607 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878021608 dimer interface [polypeptide binding]; other site 1042878021609 conserved gate region; other site 1042878021610 putative PBP binding loops; other site 1042878021611 ABC-ATPase subunit interface; other site 1042878021612 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878021613 dimer interface [polypeptide binding]; other site 1042878021614 conserved gate region; other site 1042878021615 putative PBP binding loops; other site 1042878021616 ABC-ATPase subunit interface; other site 1042878021617 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1042878021618 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878021619 substrate binding pocket [chemical binding]; other site 1042878021620 membrane-bound complex binding site; other site 1042878021621 hinge residues; other site 1042878021622 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042878021623 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042878021624 Walker A/P-loop; other site 1042878021625 ATP binding site [chemical binding]; other site 1042878021626 Q-loop/lid; other site 1042878021627 ABC transporter signature motif; other site 1042878021628 Walker B; other site 1042878021629 D-loop; other site 1042878021630 H-loop/switch region; other site 1042878021631 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042878021632 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878021633 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1042878021634 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042878021635 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1042878021636 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1042878021637 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1042878021638 Transposase; Region: HTH_Tnp_1; cl17663 1042878021639 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1042878021640 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1042878021641 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878021642 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1042878021643 putative dimerization interface [polypeptide binding]; other site 1042878021644 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1042878021645 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042878021646 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1042878021647 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042878021648 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1042878021649 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1042878021650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1042878021651 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878021652 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021653 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1042878021654 putative dimerization interface [polypeptide binding]; other site 1042878021655 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878021656 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878021657 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1042878021658 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878021659 glycerate dehydrogenase; Provisional; Region: PRK06932 1042878021660 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1042878021661 putative ligand binding site [chemical binding]; other site 1042878021662 putative NAD binding site [chemical binding]; other site 1042878021663 catalytic site [active] 1042878021664 potential frameshift: common BLAST hit: gi|241664734|ref|YP_002983094.1| pyruvate kinase 1042878021665 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1042878021666 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1042878021667 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1042878021668 Integrase core domain; Region: rve_3; pfam13683 1042878021669 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878021670 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1042878021671 tetramerization interface [polypeptide binding]; other site 1042878021672 NAD(P) binding site [chemical binding]; other site 1042878021673 catalytic residues [active] 1042878021674 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1042878021675 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042878021676 PYR/PP interface [polypeptide binding]; other site 1042878021677 dimer interface [polypeptide binding]; other site 1042878021678 TPP binding site [chemical binding]; other site 1042878021679 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042878021680 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 1042878021681 TPP-binding site; other site 1042878021682 dimer interface [polypeptide binding]; other site 1042878021683 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878021684 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878021685 putative substrate translocation pore; other site 1042878021686 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1042878021687 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878021688 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878021689 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1042878021690 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1042878021691 NAD(P) binding site [chemical binding]; other site 1042878021692 short chain dehydrogenase; Provisional; Region: PRK06500 1042878021693 classical (c) SDRs; Region: SDR_c; cd05233 1042878021694 NAD(P) binding site [chemical binding]; other site 1042878021695 active site 1042878021696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878021697 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1042878021698 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1042878021699 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042878021700 catalytic residue [active] 1042878021701 hypothetical protein; Validated; Region: PRK06201 1042878021702 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1042878021703 aspartate aminotransferase; Provisional; Region: PRK05764 1042878021704 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042878021705 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042878021706 homodimer interface [polypeptide binding]; other site 1042878021707 catalytic residue [active] 1042878021708 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1042878021709 homotrimer interaction site [polypeptide binding]; other site 1042878021710 putative active site [active] 1042878021711 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042878021712 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042878021713 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042878021714 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042878021715 Walker A/P-loop; other site 1042878021716 ATP binding site [chemical binding]; other site 1042878021717 Q-loop/lid; other site 1042878021718 ABC transporter signature motif; other site 1042878021719 Walker B; other site 1042878021720 D-loop; other site 1042878021721 H-loop/switch region; other site 1042878021722 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878021723 dimer interface [polypeptide binding]; other site 1042878021724 conserved gate region; other site 1042878021725 putative PBP binding loops; other site 1042878021726 ABC-ATPase subunit interface; other site 1042878021727 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878021728 dimer interface [polypeptide binding]; other site 1042878021729 conserved gate region; other site 1042878021730 putative PBP binding loops; other site 1042878021731 ABC-ATPase subunit interface; other site 1042878021732 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042878021733 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878021734 substrate binding pocket [chemical binding]; other site 1042878021735 membrane-bound complex binding site; other site 1042878021736 hinge residues; other site 1042878021737 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878021738 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021739 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042878021740 dimerization interface [polypeptide binding]; other site 1042878021741 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878021742 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021743 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042878021744 dimerization interface [polypeptide binding]; other site 1042878021745 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878021746 Carboxylesterase family; Region: COesterase; pfam00135 1042878021747 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1042878021748 substrate binding pocket [chemical binding]; other site 1042878021749 catalytic triad [active] 1042878021750 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042878021751 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 1042878021752 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1042878021753 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 1042878021754 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1042878021755 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1042878021756 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1042878021757 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 1042878021758 dimer interface [polypeptide binding]; other site 1042878021759 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878021760 metal binding site [ion binding]; metal-binding site 1042878021761 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878021762 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021763 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1042878021764 putative dimerization interface [polypeptide binding]; other site 1042878021765 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042878021766 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878021767 DNA-binding site [nucleotide binding]; DNA binding site 1042878021768 FCD domain; Region: FCD; pfam07729 1042878021769 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1042878021770 tartrate dehydrogenase; Region: TTC; TIGR02089 1042878021771 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878021772 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1042878021773 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1042878021774 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 1042878021775 heme-binding site [chemical binding]; other site 1042878021776 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 1042878021777 FAD binding pocket [chemical binding]; other site 1042878021778 FAD binding motif [chemical binding]; other site 1042878021779 phosphate binding motif [ion binding]; other site 1042878021780 beta-alpha-beta structure motif; other site 1042878021781 NAD binding pocket [chemical binding]; other site 1042878021782 Heme binding pocket [chemical binding]; other site 1042878021783 H-NS histone family; Region: Histone_HNS; pfam00816 1042878021784 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1042878021785 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878021786 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878021787 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878021788 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878021789 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1042878021790 hydrogenase 4 subunit B; Validated; Region: PRK06521 1042878021791 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1042878021792 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1042878021793 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 1042878021794 hydrogenase 4 subunit F; Validated; Region: PRK06458 1042878021795 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1042878021796 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1042878021797 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 1042878021798 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1042878021799 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 1042878021800 ParG; Region: ParG; pfam09274 1042878021801 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1042878021802 dimerization domain swap beta strand [polypeptide binding]; other site 1042878021803 regulatory protein interface [polypeptide binding]; other site 1042878021804 active site 1042878021805 regulatory phosphorylation site [posttranslational modification]; other site 1042878021806 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878021807 S-adenosylmethionine binding site [chemical binding]; other site 1042878021808 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1042878021809 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 1042878021810 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1042878021811 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1042878021812 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1042878021813 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1042878021814 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042878021815 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1042878021816 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042878021817 DNA binding residues [nucleotide binding] 1042878021818 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1042878021819 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1042878021820 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1042878021821 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878021822 dimerization interface [polypeptide binding]; other site 1042878021823 putative DNA binding site [nucleotide binding]; other site 1042878021824 putative Zn2+ binding site [ion binding]; other site 1042878021825 Predicted transporter component [General function prediction only]; Region: COG2391 1042878021826 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 1042878021827 Predicted transporter component [General function prediction only]; Region: COG2391 1042878021828 Sulphur transport; Region: Sulf_transp; pfam04143 1042878021829 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1042878021830 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878021831 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878021832 trimer interface [polypeptide binding]; other site 1042878021833 eyelet of channel; other site 1042878021834 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1042878021835 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 1042878021836 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1042878021837 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1042878021838 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 1042878021839 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1042878021840 NAD binding site [chemical binding]; other site 1042878021841 homotetramer interface [polypeptide binding]; other site 1042878021842 homodimer interface [polypeptide binding]; other site 1042878021843 substrate binding site [chemical binding]; other site 1042878021844 active site 1042878021845 propionate/acetate kinase; Provisional; Region: PRK12379 1042878021846 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 1042878021847 phosphate acetyltransferase; Provisional; Region: PRK11890 1042878021848 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 1042878021849 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 1042878021850 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1042878021851 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1042878021852 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878021853 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878021854 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878021855 enoyl-CoA hydratase; Provisional; Region: PRK09245 1042878021856 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878021857 substrate binding site [chemical binding]; other site 1042878021858 oxyanion hole (OAH) forming residues; other site 1042878021859 trimer interface [polypeptide binding]; other site 1042878021860 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1042878021861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878021862 NAD(P) binding site [chemical binding]; other site 1042878021863 active site 1042878021864 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878021865 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021866 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042878021867 dimerization interface [polypeptide binding]; other site 1042878021868 substrate binding pocket [chemical binding]; other site 1042878021869 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042878021870 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878021871 substrate binding site [chemical binding]; other site 1042878021872 oxyanion hole (OAH) forming residues; other site 1042878021873 trimer interface [polypeptide binding]; other site 1042878021874 putative acyltransferase; Provisional; Region: PRK05790 1042878021875 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042878021876 dimer interface [polypeptide binding]; other site 1042878021877 active site 1042878021878 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878021879 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878021880 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878021881 active site 1042878021882 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878021883 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878021884 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878021885 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878021886 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878021887 trimer interface [polypeptide binding]; other site 1042878021888 eyelet of channel; other site 1042878021889 enoyl-CoA hydratase; Provisional; Region: PRK06688 1042878021890 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878021891 substrate binding site [chemical binding]; other site 1042878021892 oxyanion hole (OAH) forming residues; other site 1042878021893 trimer interface [polypeptide binding]; other site 1042878021894 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 1042878021895 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1042878021896 FAD binding site [chemical binding]; other site 1042878021897 substrate binding site [chemical binding]; other site 1042878021898 catalytic base [active] 1042878021899 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 1042878021900 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1042878021901 active site 1042878021902 short chain dehydrogenase; Provisional; Region: PRK07791 1042878021903 Homeodomain-like domain; Region: HTH_23; pfam13384 1042878021904 Winged helix-turn helix; Region: HTH_29; pfam13551 1042878021905 Homeodomain-like domain; Region: HTH_32; pfam13565 1042878021906 AAA ATPase domain; Region: AAA_16; pfam13191 1042878021907 AAA domain; Region: AAA_22; pfam13401 1042878021908 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878021909 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878021910 DNA binding residues [nucleotide binding] 1042878021911 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 1042878021912 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 1042878021913 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1042878021914 active site 1042878021915 DUF35 OB-fold domain; Region: DUF35; pfam01796 1042878021916 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1042878021917 CoA binding domain; Region: CoA_binding_2; pfam13380 1042878021918 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1042878021919 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1042878021920 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042878021921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042878021922 NAD(P) binding site [chemical binding]; other site 1042878021923 active site 1042878021924 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878021925 short chain dehydrogenase; Provisional; Region: PRK07791 1042878021926 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 1042878021927 NAD binding site [chemical binding]; other site 1042878021928 homodimer interface [polypeptide binding]; other site 1042878021929 active site 1042878021930 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1042878021931 active site 1042878021932 catalytic site [active] 1042878021933 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 1042878021934 active site 1042878021935 catalytic site [active] 1042878021936 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 1042878021937 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878021938 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878021939 acyl-activating enzyme (AAE) consensus motif; other site 1042878021940 AMP binding site [chemical binding]; other site 1042878021941 active site 1042878021942 CoA binding site [chemical binding]; other site 1042878021943 lipid-transfer protein; Provisional; Region: PRK08256 1042878021944 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1042878021945 active site 1042878021946 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878021947 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878021948 active site 1042878021949 AAA ATPase domain; Region: AAA_16; pfam13191 1042878021950 AAA domain; Region: AAA_22; pfam13401 1042878021951 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878021952 DNA binding residues [nucleotide binding] 1042878021953 dimerization interface [polypeptide binding]; other site 1042878021954 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1042878021955 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1042878021956 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042878021957 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042878021958 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042878021959 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878021960 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1042878021961 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042878021962 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1042878021963 CoA binding domain; Region: CoA_binding_2; pfam13380 1042878021964 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1042878021965 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1042878021966 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042878021967 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878021968 substrate binding site [chemical binding]; other site 1042878021969 oxyanion hole (OAH) forming residues; other site 1042878021970 trimer interface [polypeptide binding]; other site 1042878021971 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878021972 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878021973 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042878021974 membrane-bound complex binding site; other site 1042878021975 hinge residues; other site 1042878021976 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878021977 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878021978 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1042878021979 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1042878021980 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1042878021981 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1042878021982 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878021983 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878021984 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878021985 putative substrate translocation pore; other site 1042878021986 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042878021987 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042878021988 dimerization interface [polypeptide binding]; other site 1042878021989 putative DNA binding site [nucleotide binding]; other site 1042878021990 putative Zn2+ binding site [ion binding]; other site 1042878021991 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1042878021992 active site residue [active] 1042878021993 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1042878021994 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042878021995 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042878021996 Walker A/P-loop; other site 1042878021997 ATP binding site [chemical binding]; other site 1042878021998 Q-loop/lid; other site 1042878021999 ABC transporter signature motif; other site 1042878022000 Walker B; other site 1042878022001 D-loop; other site 1042878022002 H-loop/switch region; other site 1042878022003 transcriptional regulator NanR; Provisional; Region: PRK03837 1042878022004 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878022005 DNA-binding site [nucleotide binding]; DNA binding site 1042878022006 FCD domain; Region: FCD; pfam07729 1042878022007 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1042878022008 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878022009 putative substrate translocation pore; other site 1042878022010 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1042878022011 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 1042878022012 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 1042878022013 dimer interface [polypeptide binding]; other site 1042878022014 active site 1042878022015 catalytic residue [active] 1042878022016 metal binding site [ion binding]; metal-binding site 1042878022017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1042878022018 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878022019 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878022020 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1042878022021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878022022 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1042878022023 putative dimerization interface [polypeptide binding]; other site 1042878022024 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878022025 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878022026 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042878022027 classical (c) SDRs; Region: SDR_c; cd05233 1042878022028 NAD(P) binding site [chemical binding]; other site 1042878022029 active site 1042878022030 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878022031 D-galactonate transporter; Region: 2A0114; TIGR00893 1042878022032 putative substrate translocation pore; other site 1042878022033 L-rhamnonate dehydratase; Provisional; Region: PRK15440 1042878022034 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 1042878022035 putative active site pocket [active] 1042878022036 putative metal binding site [ion binding]; other site 1042878022037 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878022038 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042878022039 NAD(P) binding site [chemical binding]; other site 1042878022040 catalytic residues [active] 1042878022041 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1042878022042 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042878022043 PYR/PP interface [polypeptide binding]; other site 1042878022044 dimer interface [polypeptide binding]; other site 1042878022045 TPP binding site [chemical binding]; other site 1042878022046 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042878022047 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 1042878022048 TPP-binding site [chemical binding]; other site 1042878022049 dimer interface [polypeptide binding]; other site 1042878022050 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878022051 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 1042878022052 active site 1042878022053 intersubunit interface [polypeptide binding]; other site 1042878022054 Zn2+ binding site [ion binding]; other site 1042878022055 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878022056 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878022057 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878022058 dimerization interface [polypeptide binding]; other site 1042878022059 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878022060 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878022061 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878022062 eyelet of channel; other site 1042878022063 trimer interface [polypeptide binding]; other site 1042878022064 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1042878022065 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878022066 Outer membrane efflux protein; Region: OEP; pfam02321 1042878022067 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878022068 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1042878022069 catalytic triad [active] 1042878022070 conserved cis-peptide bond; other site 1042878022071 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878022072 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878022073 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 1042878022074 substrate binding pocket [chemical binding]; other site 1042878022075 dimerization interface [polypeptide binding]; other site 1042878022076 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1042878022077 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1042878022078 LysR family transcriptional regulator; Provisional; Region: PRK14997 1042878022079 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878022080 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878022081 putative effector binding pocket; other site 1042878022082 dimerization interface [polypeptide binding]; other site 1042878022083 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878022084 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878022085 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 1042878022086 substrate binding pocket [chemical binding]; other site 1042878022087 dimerization interface [polypeptide binding]; other site 1042878022088 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1042878022089 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878022090 catalytic loop [active] 1042878022091 iron binding site [ion binding]; other site 1042878022092 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 1042878022093 FAD binding pocket [chemical binding]; other site 1042878022094 FAD binding motif [chemical binding]; other site 1042878022095 phosphate binding motif [ion binding]; other site 1042878022096 beta-alpha-beta structure motif; other site 1042878022097 NAD binding pocket [chemical binding]; other site 1042878022098 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1042878022099 active site 1042878022100 metal binding site [ion binding]; metal-binding site 1042878022101 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878022102 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878022103 Domain of unknown function (DUF336); Region: DUF336; cl01249 1042878022104 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1042878022105 YCII-related domain; Region: YCII; pfam03795 1042878022106 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878022107 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878022108 Walker A/P-loop; other site 1042878022109 ATP binding site [chemical binding]; other site 1042878022110 Q-loop/lid; other site 1042878022111 ABC transporter signature motif; other site 1042878022112 Walker B; other site 1042878022113 D-loop; other site 1042878022114 H-loop/switch region; other site 1042878022115 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878022116 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878022117 Walker A/P-loop; other site 1042878022118 ATP binding site [chemical binding]; other site 1042878022119 Q-loop/lid; other site 1042878022120 ABC transporter signature motif; other site 1042878022121 Walker B; other site 1042878022122 D-loop; other site 1042878022123 H-loop/switch region; other site 1042878022124 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1042878022125 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878022126 TM-ABC transporter signature motif; other site 1042878022127 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878022128 TM-ABC transporter signature motif; other site 1042878022129 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878022130 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 1042878022131 putative ligand binding site [chemical binding]; other site 1042878022132 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878022133 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878022134 trimer interface [polypeptide binding]; other site 1042878022135 eyelet of channel; other site 1042878022136 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 1042878022137 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 1042878022138 active site 1042878022139 catalytic residues [active] 1042878022140 metal binding site [ion binding]; metal-binding site 1042878022141 DmpG-like communication domain; Region: DmpG_comm; pfam07836 1042878022142 acetaldehyde dehydrogenase; Validated; Region: PRK08300 1042878022143 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1042878022144 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 1042878022145 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 1042878022146 active site 1 [active] 1042878022147 dimer interface [polypeptide binding]; other site 1042878022148 hexamer interface [polypeptide binding]; other site 1042878022149 active site 2 [active] 1042878022150 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1042878022151 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1042878022152 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 1042878022153 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1042878022154 NAD binding site [chemical binding]; other site 1042878022155 catalytic residues [active] 1042878022156 benzoate transport; Region: 2A0115; TIGR00895 1042878022157 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878022158 putative substrate translocation pore; other site 1042878022159 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878022160 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]; Region: AraD; COG0235 1042878022161 active site 1042878022162 Zn2+ binding site [ion binding]; other site 1042878022163 intersubunit interface [polypeptide binding]; other site 1042878022164 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1042878022165 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 1042878022166 active site 1042878022167 metal binding site [ion binding]; metal-binding site 1042878022168 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 1042878022169 active site 1042878022170 metal binding site [ion binding]; metal-binding site 1042878022171 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878022172 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878022173 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 1042878022174 substrate binding pocket [chemical binding]; other site 1042878022175 dimerization interface [polypeptide binding]; other site 1042878022176 NIPSNAP; Region: NIPSNAP; pfam07978 1042878022177 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042878022178 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878022179 putative substrate translocation pore; other site 1042878022180 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878022181 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878022182 trimer interface [polypeptide binding]; other site 1042878022183 eyelet of channel; other site 1042878022184 Predicted flavoprotein [General function prediction only]; Region: COG0431 1042878022185 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042878022186 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1042878022187 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1042878022188 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1042878022189 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1042878022190 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878022191 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878022192 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1042878022193 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878022194 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1042878022195 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1042878022196 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1042878022197 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1042878022198 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl15777 1042878022199 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878022200 active site 1042878022201 DNA binding site [nucleotide binding] 1042878022202 Int/Topo IB signature motif; other site 1042878022203 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1042878022204 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878022205 active site 1042878022206 DNA binding site [nucleotide binding] 1042878022207 Int/Topo IB signature motif; other site 1042878022208 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042878022209 active site 1042878022210 Int/Topo IB signature motif; other site 1042878022211 DNA binding site [nucleotide binding] 1042878022212 Hyaluronidase; Region: Glyco_hydro_56; pfam01630 1042878022213 AAA domain; Region: AAA_22; pfam13401 1042878022214 Integrase core domain; Region: rve; pfam00665 1042878022215 Integrase core domain; Region: rve_3; cl15866 1042878022216 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 1042878022217 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1042878022218 S-formylglutathione hydrolase; Region: PLN02442 1042878022219 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1042878022220 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1042878022221 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1042878022222 substrate binding site [chemical binding]; other site 1042878022223 catalytic Zn binding site [ion binding]; other site 1042878022224 NAD binding site [chemical binding]; other site 1042878022225 structural Zn binding site [ion binding]; other site 1042878022226 dimer interface [polypeptide binding]; other site 1042878022227 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1042878022228 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042878022229 iron-sulfur cluster [ion binding]; other site 1042878022230 [2Fe-2S] cluster binding site [ion binding]; other site 1042878022231 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1042878022232 hydrophobic ligand binding site; other site 1042878022233 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1042878022234 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1042878022235 FMN-binding pocket [chemical binding]; other site 1042878022236 flavin binding motif; other site 1042878022237 phosphate binding motif [ion binding]; other site 1042878022238 beta-alpha-beta structure motif; other site 1042878022239 NAD binding pocket [chemical binding]; other site 1042878022240 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878022241 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1042878022242 catalytic loop [active] 1042878022243 iron binding site [ion binding]; other site 1042878022244 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 1042878022245 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1042878022246 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878022247 catalytic loop [active] 1042878022248 iron binding site [ion binding]; other site 1042878022249 Toluene-4-monoxygenase electron transfer component of Pseudomonas mendocina hydroxylates toluene and forms p-cresol as part of a three component toluene-4-monoxygenase system. Electron transfer is from NADH to an NADH:ferredoxin oxidoreductase (TmoF in P; Region: T4MO_e_transfer_like; cd06190 1042878022250 FAD binding pocket [chemical binding]; other site 1042878022251 FAD binding motif [chemical binding]; other site 1042878022252 phosphate binding motif [ion binding]; other site 1042878022253 beta-alpha-beta structure motif; other site 1042878022254 NAD binding pocket [chemical binding]; other site 1042878022255 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 1042878022256 dimerization interface [polypeptide binding]; other site 1042878022257 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 1042878022258 Toluene-4-monooxygenase effector protein complex (T4mo), Rieske ferredoxin subunit; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. T4mo is a four-protein complex that catalyzes the NADH- and O2-dependent...; Region: Rieske_T4moC; cd03474 1042878022259 [2Fe-2S] cluster binding site [ion binding]; other site 1042878022260 Toluene-4-monooxygenase system protein B (TmoB); Region: TmoB; pfam06234 1042878022261 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1042878022262 dinuclear metal binding motif [ion binding]; other site 1042878022263 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1042878022264 sensor protein ZraS; Provisional; Region: PRK10364 1042878022265 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878022266 putative active site [active] 1042878022267 heme pocket [chemical binding]; other site 1042878022268 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878022269 dimer interface [polypeptide binding]; other site 1042878022270 phosphorylation site [posttranslational modification] 1042878022271 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878022272 ATP binding site [chemical binding]; other site 1042878022273 Mg2+ binding site [ion binding]; other site 1042878022274 G-X-G motif; other site 1042878022275 Response regulator receiver domain; Region: Response_reg; pfam00072 1042878022276 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878022277 active site 1042878022278 phosphorylation site [posttranslational modification] 1042878022279 intermolecular recognition site; other site 1042878022280 dimerization interface [polypeptide binding]; other site 1042878022281 PAS domain S-box; Region: sensory_box; TIGR00229 1042878022282 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878022283 putative active site [active] 1042878022284 heme pocket [chemical binding]; other site 1042878022285 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042878022286 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042878022287 dimer interface [polypeptide binding]; other site 1042878022288 phosphorylation site [posttranslational modification] 1042878022289 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878022290 ATP binding site [chemical binding]; other site 1042878022291 Mg2+ binding site [ion binding]; other site 1042878022292 G-X-G motif; other site 1042878022293 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1042878022294 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878022295 active site 1042878022296 phosphorylation site [posttranslational modification] 1042878022297 intermolecular recognition site; other site 1042878022298 dimerization interface [polypeptide binding]; other site 1042878022299 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878022300 DNA binding residues [nucleotide binding] 1042878022301 dimerization interface [polypeptide binding]; other site 1042878022302 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1042878022303 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 1042878022304 dimer interface [polypeptide binding]; other site 1042878022305 active site 1042878022306 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 1042878022307 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878022308 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878022309 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042878022310 PAS domain; Region: PAS_9; pfam13426 1042878022311 putative active site [active] 1042878022312 heme pocket [chemical binding]; other site 1042878022313 Heme NO binding associated; Region: HNOBA; pfam07701 1042878022314 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1042878022315 cyclase homology domain; Region: CHD; cd07302 1042878022316 nucleotidyl binding site; other site 1042878022317 metal binding site [ion binding]; metal-binding site 1042878022318 dimer interface [polypeptide binding]; other site 1042878022319 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878022320 trimer interface [polypeptide binding]; other site 1042878022321 eyelet of channel; other site 1042878022322 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1042878022323 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1042878022324 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1042878022325 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1042878022326 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878022327 dimer interface [polypeptide binding]; other site 1042878022328 conserved gate region; other site 1042878022329 ABC-ATPase subunit interface; other site 1042878022330 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042878022331 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042878022332 dimer interface [polypeptide binding]; other site 1042878022333 conserved gate region; other site 1042878022334 putative PBP binding loops; other site 1042878022335 ABC-ATPase subunit interface; other site 1042878022336 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1042878022337 NMT1/THI5 like; Region: NMT1; pfam09084 1042878022338 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878022339 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878022340 Predicted flavoprotein [General function prediction only]; Region: COG0431 1042878022341 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042878022342 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1042878022343 tetramerization interface [polypeptide binding]; other site 1042878022344 NAD(P) binding site [chemical binding]; other site 1042878022345 catalytic residues [active] 1042878022346 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042878022347 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878022348 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878022349 Walker A/P-loop; other site 1042878022350 ATP binding site [chemical binding]; other site 1042878022351 Q-loop/lid; other site 1042878022352 ABC transporter signature motif; other site 1042878022353 Walker B; other site 1042878022354 D-loop; other site 1042878022355 H-loop/switch region; other site 1042878022356 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878022357 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878022358 Walker A/P-loop; other site 1042878022359 ATP binding site [chemical binding]; other site 1042878022360 Q-loop/lid; other site 1042878022361 ABC transporter signature motif; other site 1042878022362 Walker B; other site 1042878022363 D-loop; other site 1042878022364 H-loop/switch region; other site 1042878022365 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1042878022366 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878022367 TM-ABC transporter signature motif; other site 1042878022368 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878022369 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042878022370 TM-ABC transporter signature motif; other site 1042878022371 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878022372 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 1042878022373 putative ligand binding site [chemical binding]; other site 1042878022374 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042878022375 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1042878022376 iron-sulfur cluster [ion binding]; other site 1042878022377 [2Fe-2S] cluster binding site [ion binding]; other site 1042878022378 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 1042878022379 putative alpha subunit interface [polypeptide binding]; other site 1042878022380 putative active site [active] 1042878022381 putative substrate binding site [chemical binding]; other site 1042878022382 Fe binding site [ion binding]; other site 1042878022383 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 1042878022384 inter-subunit interface; other site 1042878022385 Cupin domain; Region: Cupin_2; pfam07883 1042878022386 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1042878022387 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1042878022388 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878022389 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878022390 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 1042878022391 [2Fe-2S] cluster binding site [ion binding]; other site 1042878022392 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878022393 transcriptional activator TtdR; Provisional; Region: PRK09801 1042878022394 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878022395 putative effector binding pocket; other site 1042878022396 dimerization interface [polypeptide binding]; other site 1042878022397 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1042878022398 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1042878022399 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1042878022400 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042878022401 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042878022402 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1042878022403 Double zinc ribbon; Region: DZR; pfam12773 1042878022404 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1042878022405 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1042878022406 cyclase homology domain; Region: CHD; cd07302 1042878022407 nucleotidyl binding site; other site 1042878022408 metal binding site [ion binding]; metal-binding site 1042878022409 dimer interface [polypeptide binding]; other site 1042878022410 AAA ATPase domain; Region: AAA_16; pfam13191 1042878022411 Predicted ATPase [General function prediction only]; Region: COG3899 1042878022412 Predicted ATPase [General function prediction only]; Region: COG3903 1042878022413 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878022414 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878022415 trimer interface [polypeptide binding]; other site 1042878022416 eyelet of channel; other site 1042878022417 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1042878022418 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1042878022419 NAD(P) binding site [chemical binding]; other site 1042878022420 Helix-turn-helix domain; Region: HTH_37; pfam13744 1042878022421 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042878022422 Transposase; Region: HTH_Tnp_1; cl17663 1042878022423 putative transposase OrfB; Reviewed; Region: PHA02517 1042878022424 Integrase core domain; Region: rve; pfam00665 1042878022425 Integrase core domain; Region: rve_3; pfam13683 1042878022426 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1042878022427 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042878022428 putative CheW interface [polypeptide binding]; other site 1042878022429 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1042878022430 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1042878022431 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878022432 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878022433 dimerization interface [polypeptide binding]; other site 1042878022434 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 1042878022435 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878022436 putative substrate translocation pore; other site 1042878022437 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1042878022438 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042878022439 MarR family; Region: MarR; pfam01047 1042878022440 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042878022441 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042878022442 active site 1042878022443 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1042878022444 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 1042878022445 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 1042878022446 dimer interface [polypeptide binding]; other site 1042878022447 active site 1042878022448 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 1042878022449 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1042878022450 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 1042878022451 active site 1042878022452 dimer interface [polypeptide binding]; other site 1042878022453 metal binding site [ion binding]; metal-binding site 1042878022454 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878022455 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1042878022456 catalytic triad [active] 1042878022457 conserved cis-peptide bond; other site 1042878022458 Pirin-related protein [General function prediction only]; Region: COG1741 1042878022459 Pirin; Region: Pirin; pfam02678 1042878022460 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1042878022461 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042878022462 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1042878022463 FMN binding site [chemical binding]; other site 1042878022464 active site 1042878022465 substrate binding site [chemical binding]; other site 1042878022466 catalytic residue [active] 1042878022467 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878022468 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878022469 trimer interface [polypeptide binding]; other site 1042878022470 eyelet of channel; other site 1042878022471 Uncharacterized conserved protein [Function unknown]; Region: COG5276 1042878022472 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042878022473 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042878022474 NAD(P) binding site [chemical binding]; other site 1042878022475 catalytic residues [active] 1042878022476 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 1042878022477 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042878022478 PYR/PP interface [polypeptide binding]; other site 1042878022479 dimer interface [polypeptide binding]; other site 1042878022480 TPP binding site [chemical binding]; other site 1042878022481 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042878022482 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 1042878022483 TPP-binding site [chemical binding]; other site 1042878022484 dimer interface [polypeptide binding]; other site 1042878022485 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878022486 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 1042878022487 active site 1042878022488 intersubunit interface [polypeptide binding]; other site 1042878022489 Zn2+ binding site [ion binding]; other site 1042878022490 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878022491 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878022492 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878022493 dimerization interface [polypeptide binding]; other site 1042878022494 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878022495 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042878022496 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1042878022497 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1042878022498 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878022499 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042878022500 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878022501 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1042878022502 catalytic triad [active] 1042878022503 conserved cis-peptide bond; other site 1042878022504 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878022505 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878022506 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878022507 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878022508 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878022509 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878022510 dimerization interface [polypeptide binding]; other site 1042878022511 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1042878022512 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1042878022513 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042878022514 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1042878022515 FMN binding site [chemical binding]; other site 1042878022516 active site 1042878022517 substrate binding site [chemical binding]; other site 1042878022518 catalytic residue [active] 1042878022519 LysR family transcriptional regulator; Provisional; Region: PRK14997 1042878022520 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878022521 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1042878022522 putative effector binding pocket; other site 1042878022523 dimerization interface [polypeptide binding]; other site 1042878022524 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878022525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878022526 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 1042878022527 substrate binding pocket [chemical binding]; other site 1042878022528 dimerization interface [polypeptide binding]; other site 1042878022529 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1042878022530 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042878022531 catalytic loop [active] 1042878022532 iron binding site [ion binding]; other site 1042878022533 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 1042878022534 FAD binding pocket [chemical binding]; other site 1042878022535 FAD binding motif [chemical binding]; other site 1042878022536 phosphate binding motif [ion binding]; other site 1042878022537 beta-alpha-beta structure motif; other site 1042878022538 NAD binding pocket [chemical binding]; other site 1042878022539 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1042878022540 active site 1042878022541 metal binding site [ion binding]; metal-binding site 1042878022542 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878022543 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878022544 Domain of unknown function (DUF336); Region: DUF336; cl01249 1042878022545 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1042878022546 YCII-related domain; Region: YCII; pfam03795 1042878022547 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042878022548 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042878022549 Walker A/P-loop; other site 1042878022550 ATP binding site [chemical binding]; other site 1042878022551 Q-loop/lid; other site 1042878022552 ABC transporter signature motif; other site 1042878022553 Walker B; other site 1042878022554 D-loop; other site 1042878022555 H-loop/switch region; other site 1042878022556 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042878022557 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042878022558 Walker A/P-loop; other site 1042878022559 ATP binding site [chemical binding]; other site 1042878022560 Q-loop/lid; other site 1042878022561 ABC transporter signature motif; other site 1042878022562 Walker B; other site 1042878022563 D-loop; other site 1042878022564 H-loop/switch region; other site 1042878022565 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1042878022566 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042878022567 TM-ABC transporter signature motif; other site 1042878022568 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042878022569 TM-ABC transporter signature motif; other site 1042878022570 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042878022571 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 1042878022572 putative ligand binding site [chemical binding]; other site 1042878022573 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1042878022574 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1042878022575 trimer interface [polypeptide binding]; other site 1042878022576 eyelet of channel; other site 1042878022577 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 1042878022578 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 1042878022579 active site 1042878022580 catalytic residues [active] 1042878022581 metal binding site [ion binding]; metal-binding site 1042878022582 DmpG-like communication domain; Region: DmpG_comm; pfam07836 1042878022583 acetaldehyde dehydrogenase; Validated; Region: PRK08300 1042878022584 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1042878022585 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 1042878022586 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 1042878022587 active site 1 [active] 1042878022588 dimer interface [polypeptide binding]; other site 1042878022589 hexamer interface [polypeptide binding]; other site 1042878022590 active site 2 [active] 1042878022591 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1042878022592 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1042878022593 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 1042878022594 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1042878022595 NAD binding site [chemical binding]; other site 1042878022596 catalytic residues [active] 1042878022597 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]; Region: AraD; COG0235 1042878022598 Zn2+ binding site [ion binding]; other site 1042878022599 intersubunit interface [polypeptide binding]; other site 1042878022600 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1042878022601 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 1042878022602 active site 1042878022603 metal binding site [ion binding]; metal-binding site 1042878022604 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 1042878022605 active site 1042878022606 metal binding site [ion binding]; metal-binding site 1042878022607 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878022608 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878022609 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 1042878022610 substrate binding pocket [chemical binding]; other site 1042878022611 dimerization interface [polypeptide binding]; other site 1042878022612 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1042878022613 hypothetical protein; Provisional; Region: PRK07236 1042878022614 Isochorismatase family; Region: Isochorismatase; pfam00857 1042878022615 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1042878022616 catalytic triad [active] 1042878022617 conserved cis-peptide bond; other site 1042878022618 Pirin-related protein [General function prediction only]; Region: COG1741 1042878022619 Pirin; Region: Pirin; pfam02678 1042878022620 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042878022621 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1042878022622 FMN binding site [chemical binding]; other site 1042878022623 active site 1042878022624 substrate binding site [chemical binding]; other site 1042878022625 catalytic residue [active] 1042878022626 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042878022627 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042878022628 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042878022629 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1042878022630 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1042878022631 Walker A/P-loop; other site 1042878022632 ATP binding site [chemical binding]; other site 1042878022633 Q-loop/lid; other site 1042878022634 ABC transporter signature motif; other site 1042878022635 Walker B; other site 1042878022636 D-loop; other site 1042878022637 H-loop/switch region; other site 1042878022638 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1042878022639 FtsX-like permease family; Region: FtsX; pfam02687 1042878022640 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1042878022641 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042878022642 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878022643 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 1042878022644 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1042878022645 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878022646 DNA binding residues [nucleotide binding] 1042878022647 dimerization interface [polypeptide binding]; other site 1042878022648 Autoinducer synthetase; Region: Autoind_synth; cl17404 1042878022649 DDE superfamily endonuclease; Region: DDE_5; cl17874 1042878022650 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878022651 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042878022652 active site 1042878022653 phosphorylation site [posttranslational modification] 1042878022654 intermolecular recognition site; other site 1042878022655 dimerization interface [polypeptide binding]; other site 1042878022656 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878022657 DNA binding residues [nucleotide binding] 1042878022658 dimerization interface [polypeptide binding]; other site 1042878022659 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1042878022660 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042878022661 ATP binding site [chemical binding]; other site 1042878022662 Mg2+ binding site [ion binding]; other site 1042878022663 G-X-G motif; other site 1042878022664 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878022665 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878022666 DNA binding residues [nucleotide binding] 1042878022667 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042878022668 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042878022669 dimerization interface [polypeptide binding]; other site 1042878022670 DNA binding residues [nucleotide binding] 1042878022671 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 1042878022672 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1042878022673 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042878022674 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042878022675 dimerization interface [polypeptide binding]; other site 1042878022676 substrate binding pocket [chemical binding]; other site 1042878022677 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1042878022678 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1042878022679 nudix motif; other site 1042878022680 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1042878022681 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042878022682 S-adenosylmethionine binding site [chemical binding]; other site 1042878022683 Probable transposase; Region: OrfB_IS605; pfam01385 1042878022684 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042878022685 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1042878022686 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042878022687 MULE transposase domain; Region: MULE; pfam10551 1042878022688 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1042878022689 catalytic residues [active] 1042878022690 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 1042878022691 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 1042878022692 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 1042878022693 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 1042878022694 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878022695 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878022696 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878022697 ParA-like protein; Provisional; Region: PHA02518 1042878022698 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1042878022699 P-loop; other site 1042878022700 Magnesium ion binding site [ion binding]; other site 1042878022701 Replication initiator protein A; Region: RPA; pfam10134 1042878022702 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878022703 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878022704 non-specific DNA binding site [nucleotide binding]; other site 1042878022705 salt bridge; other site 1042878022706 sequence-specific DNA binding site [nucleotide binding]; other site 1042878022707 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1042878022708 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 1042878022709 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042878022710 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878022711 non-specific DNA binding site [nucleotide binding]; other site 1042878022712 salt bridge; other site 1042878022713 sequence-specific DNA binding site [nucleotide binding]; other site 1042878022714 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042878022715 non-specific DNA binding site [nucleotide binding]; other site 1042878022716 salt bridge; other site 1042878022717 sequence-specific DNA binding site [nucleotide binding]; other site 1042878022718 Uncharacterized conserved protein [Function unknown]; Region: COG5489 1042878022719 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1042878022720 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1042878022721 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1042878022722 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1042878022723 hypothetical protein; Provisional; Region: PRK06847 1042878022724 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042878022725 Cupin; Region: Cupin_6; pfam12852 1042878022726 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042878022727 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878022728 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042878022729 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042878022730 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042878022731 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042878022732 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042878022733 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1042878022734 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1042878022735 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878022736 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1042878022737 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 1042878022738 Cytochrome c; Region: Cytochrom_C; cl11414 1042878022739 MgtC family; Region: MgtC; pfam02308 1042878022740 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1042878022741 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1042878022742 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042878022743 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042878022744 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878022745 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878022746 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042878022747 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042878022748 Paraquat-inducible protein A; Region: PqiA; pfam04403 1042878022749 Paraquat-inducible protein A; Region: PqiA; pfam04403 1042878022750 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1042878022751 mce related protein; Region: MCE; pfam02470 1042878022752 mce related protein; Region: MCE; pfam02470 1042878022753 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1042878022754 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1042878022755 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878022756 DNA-binding site [nucleotide binding]; DNA binding site 1042878022757 UTRA domain; Region: UTRA; pfam07702 1042878022758 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1042878022759 SdiA-regulated; Region: SdiA-regulated; cd09971 1042878022760 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1042878022761 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042878022762 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042878022763 enoyl-CoA hydratase; Provisional; Region: PRK05995 1042878022764 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042878022765 substrate binding site [chemical binding]; other site 1042878022766 oxyanion hole (OAH) forming residues; other site 1042878022767 trimer interface [polypeptide binding]; other site 1042878022768 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1042878022769 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1042878022770 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042878022771 DNA-binding site [nucleotide binding]; DNA binding site 1042878022772 UTRA domain; Region: UTRA; pfam07702 1042878022773 Cupin domain; Region: Cupin_2; cl17218 1042878022774 Cupin domain; Region: Cupin_2; cl17218 1042878022775 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1042878022776 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1042878022777 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 1042878022778 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042878022779 AMP-binding domain protein; Validated; Region: PRK07529 1042878022780 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042878022781 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 1042878022782 acyl-activating enzyme (AAE) consensus motif; other site 1042878022783 putative AMP binding site [chemical binding]; other site 1042878022784 putative active site [active] 1042878022785 putative CoA binding site [chemical binding]; other site 1042878022786 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042878022787 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1042878022788 NAD(P) binding site [chemical binding]; other site 1042878022789 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 1042878022790 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1042878022791 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042878022792 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1042878022793 active site 1042878022794 metal binding site [ion binding]; metal-binding site 1042878022795 The C-terminal domain of 2,4,5-Trihydroxytoluene (THT) oxygenase, which is an extradiol dioxygenease in the 2,4-dinitrotoluene (DNT) degradation pathway; Region: THT_oxygenase_C; cd07257 1042878022796 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042878022797 putative active site [active] 1042878022798 putative metal binding site [ion binding]; other site 1042878022799 Initiator Replication protein; Region: Rep_3; pfam01051