-- dump date 20140620_010224 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1196325000001 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 1196325000002 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 1196325000003 homotrimer interaction site [polypeptide binding]; other site 1196325000004 putative active site [active] 1196325000005 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1196325000006 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1196325000007 conserved cys residue [active] 1196325000008 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325000009 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196325000010 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325000011 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1196325000012 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 1196325000013 substrate binding pocket [chemical binding]; other site 1196325000014 membrane-bound complex binding site; other site 1196325000015 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 1196325000016 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1196325000017 active site 1196325000018 non-prolyl cis peptide bond; other site 1196325000019 hypothetical protein; Provisional; Region: PRK11171 1196325000020 Cupin domain; Region: Cupin_2; pfam07883 1196325000021 Cupin domain; Region: Cupin_2; pfam07883 1196325000022 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 1196325000023 putative lipid binding site [chemical binding]; other site 1196325000024 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196325000025 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1196325000026 putative DNA binding site [nucleotide binding]; other site 1196325000027 putative Zn2+ binding site [ion binding]; other site 1196325000028 AsnC family; Region: AsnC_trans_reg; pfam01037 1196325000029 ornithine cyclodeaminase; Validated; Region: PRK07589 1196325000030 ornithine cyclodeaminase; Validated; Region: PRK07589 1196325000031 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1196325000032 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325000033 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325000034 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 1196325000035 dimerization interface [polypeptide binding]; other site 1196325000036 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1196325000037 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1196325000038 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1196325000039 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1196325000040 NAD(P) binding site [chemical binding]; other site 1196325000041 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1196325000042 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1196325000043 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196325000044 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325000045 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1196325000046 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1196325000047 DNA binding residues [nucleotide binding] 1196325000048 putative dimer interface [polypeptide binding]; other site 1196325000049 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1196325000050 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1196325000051 active site 1196325000052 catalytic residues [active] 1196325000053 metal binding site [ion binding]; metal-binding site 1196325000054 MgtC family; Region: MgtC; pfam02308 1196325000055 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 1196325000056 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1196325000057 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1196325000058 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1196325000059 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 1196325000060 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325000061 DNA-binding site [nucleotide binding]; DNA binding site 1196325000062 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 1196325000063 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325000064 homodimer interface [polypeptide binding]; other site 1196325000065 catalytic residue [active] 1196325000066 PAS fold; Region: PAS_4; pfam08448 1196325000067 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 1196325000068 dimer interface [polypeptide binding]; other site 1196325000069 phosphorylation site [posttranslational modification] 1196325000070 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 1196325000071 ATP binding site [chemical binding]; other site 1196325000072 Mg2+ binding site [ion binding]; other site 1196325000073 G-X-G motif; other site 1196325000074 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 1196325000075 active site 1196325000076 phosphorylation site [posttranslational modification] 1196325000077 intermolecular recognition site; other site 1196325000078 dimerization interface [polypeptide binding]; other site 1196325000079 PAS fold; Region: PAS_7; pfam12860 1196325000080 PAS fold; Region: PAS_4; pfam08448 1196325000081 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 1196325000082 ATP binding site [chemical binding]; other site 1196325000083 Mg2+ binding site [ion binding]; other site 1196325000084 G-X-G motif; other site 1196325000085 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325000086 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 1196325000087 active site 1196325000088 phosphorylation site [posttranslational modification] 1196325000089 intermolecular recognition site; other site 1196325000090 dimerization interface [polypeptide binding]; other site 1196325000091 short chain dehydrogenase; Provisional; Region: PRK06123 1196325000092 classical (c) SDRs; Region: SDR_c; cd05233 1196325000093 NAD(P) binding site [chemical binding]; other site 1196325000094 active site 1196325000095 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1196325000096 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1196325000097 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1196325000098 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 1196325000099 PAAR motif; Region: PAAR_motif; pfam05488 1196325000100 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1196325000101 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1196325000102 RHS Repeat; Region: RHS_repeat; pfam05593 1196325000103 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1196325000104 RHS Repeat; Region: RHS_repeat; pfam05593 1196325000105 RHS Repeat; Region: RHS_repeat; pfam05593 1196325000106 RHS Repeat; Region: RHS_repeat; pfam05593 1196325000107 RHS Repeat; Region: RHS_repeat; cl11982 1196325000108 RHS Repeat; Region: RHS_repeat; pfam05593 1196325000109 RHS Repeat; Region: RHS_repeat; pfam05593 1196325000110 RHS protein; Region: RHS; pfam03527 1196325000111 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1196325000112 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 1196325000113 active site 1196325000114 RHS Repeat; Region: RHS_repeat; cl11982 1196325000115 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1196325000116 RHS Repeat; Region: RHS_repeat; cl11982 1196325000117 RHS Repeat; Region: RHS_repeat; cl11982 1196325000118 RHS protein; Region: RHS; pfam03527 1196325000119 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1196325000120 RHS Repeat; Region: RHS_repeat; pfam05593 1196325000121 RHS Repeat; Region: RHS_repeat; pfam05593 1196325000122 RHS Repeat; Region: RHS_repeat; pfam05593 1196325000123 RHS Repeat; Region: RHS_repeat; cl11982 1196325000124 RHS Repeat; Region: RHS_repeat; cl11982 1196325000125 RHS Repeat; Region: RHS_repeat; cl11982 1196325000126 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1196325000127 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 1196325000128 catalytic residues [active] 1196325000129 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1196325000130 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1196325000131 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1196325000132 active site 1196325000133 catalytic site [active] 1196325000134 putative DNA binding site [nucleotide binding]; other site 1196325000135 GIY-YIG motif/motif A; other site 1196325000136 metal binding site [ion binding]; metal-binding site 1196325000137 UvrB/uvrC motif; Region: UVR; pfam02151 1196325000138 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1196325000139 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 1196325000140 DNA binding site [nucleotide binding] 1196325000141 response regulator; Provisional; Region: PRK09483 1196325000142 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 1196325000143 active site 1196325000144 phosphorylation site [posttranslational modification] 1196325000145 intermolecular recognition site; other site 1196325000146 dimerization interface [polypeptide binding]; other site 1196325000147 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 1196325000148 DNA binding residues [nucleotide binding] 1196325000149 dimerization interface [polypeptide binding]; other site 1196325000150 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 1196325000151 sequence-specific DNA binding site [nucleotide binding]; other site 1196325000152 salt bridge; other site 1196325000153 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325000154 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1196325000155 Coenzyme A binding pocket [chemical binding]; other site 1196325000156 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1196325000157 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1196325000158 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1196325000159 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1196325000160 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1196325000161 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1196325000162 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1196325000163 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]; Region: COG3456 1196325000164 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 1196325000165 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1196325000166 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 1196325000167 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1196325000168 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1196325000169 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1196325000170 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1196325000171 type VI secretion-associated protein, VC_A0118 family; Region: VI_minor_1; TIGR03360 1196325000172 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1196325000173 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 1196325000174 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1196325000175 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1196325000176 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1196325000177 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1196325000178 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1196325000179 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 1196325000180 non-specific DNA binding site [nucleotide binding]; other site 1196325000181 salt bridge; other site 1196325000182 sequence-specific DNA binding site [nucleotide binding]; other site 1196325000183 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 1196325000184 Catalytic site [active] 1196325000185 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 1196325000186 non-specific DNA binding site [nucleotide binding]; other site 1196325000187 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1196325000188 salt bridge; other site 1196325000189 sequence-specific DNA binding site [nucleotide binding]; other site 1196325000190 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 1196325000191 Catalytic site [active] 1196325000192 Secretin and TonB N terminus short domain; Region: STN; smart00965 1196325000193 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1196325000194 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 1196325000195 N-terminal plug; other site 1196325000196 ligand-binding site [chemical binding]; other site 1196325000197 fec operon regulator FecR; Reviewed; Region: PRK09774 1196325000198 FecR protein; Region: FecR; pfam04773 1196325000199 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 1196325000200 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325000201 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1196325000202 DNA binding residues [nucleotide binding] 1196325000203 diaminopimelate decarboxylase; Provisional; Region: PRK11165 1196325000204 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1196325000205 active site 1196325000206 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1196325000207 substrate binding site [chemical binding]; other site 1196325000208 catalytic residues [active] 1196325000209 dimer interface [polypeptide binding]; other site 1196325000210 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1196325000211 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325000212 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 1196325000213 dimerization interface [polypeptide binding]; other site 1196325000214 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1196325000215 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1196325000216 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 1196325000217 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1196325000218 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1196325000219 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1196325000220 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1196325000221 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1196325000222 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1196325000223 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1196325000224 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325000225 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1196325000226 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1196325000227 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1196325000228 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1196325000229 xanthine permease; Region: pbuX; TIGR03173 1196325000230 Predicted membrane protein [Function unknown]; Region: COG3748 1196325000231 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1196325000232 Cytochrome c; Region: Cytochrom_C; pfam00034 1196325000233 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1196325000234 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1196325000235 OHCU decarboxylase; Region: UHCUDC; TIGR03164 1196325000236 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1196325000237 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1196325000238 active site 1196325000239 catalytic site [active] 1196325000240 tetramer interface [polypeptide binding]; other site 1196325000241 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 1196325000242 active site 1196325000243 homotetramer interface [polypeptide binding]; other site 1196325000244 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1196325000245 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 1196325000246 putative active site [active] 1196325000247 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1196325000248 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 1196325000249 Walker A/P-loop; other site 1196325000250 ATP binding site [chemical binding]; other site 1196325000251 Q-loop/lid; other site 1196325000252 ABC transporter signature motif; other site 1196325000253 Walker B; other site 1196325000254 D-loop; other site 1196325000255 H-loop/switch region; other site 1196325000256 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1196325000257 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325000258 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325000259 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 1196325000260 dimerization interface [polypeptide binding]; other site 1196325000261 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325000262 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325000263 metal binding site [ion binding]; metal-binding site 1196325000264 active site 1196325000265 I-site; other site 1196325000266 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 1196325000267 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 1196325000268 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1196325000269 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325000270 DNA-binding site [nucleotide binding]; DNA binding site 1196325000271 FCD domain; Region: FCD; pfam07729 1196325000272 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 1196325000273 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325000274 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 1196325000275 DNA binding residues [nucleotide binding] 1196325000276 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1196325000277 FecR protein; Region: FecR; pfam04773 1196325000278 Secretin and TonB N terminus short domain; Region: STN; smart00965 1196325000279 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1196325000280 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 1196325000281 N-terminal plug; other site 1196325000282 ligand-binding site [chemical binding]; other site 1196325000283 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1196325000284 Old yellow enzyme (OYE)-related FMN binding domain, group 3. 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_3_FMN; cd04734 1196325000285 putative active site [active] 1196325000286 putative FMN binding site [chemical binding]; other site 1196325000287 putative substrate binding site [chemical binding]; other site 1196325000288 putative catalytic residue [active] 1196325000289 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1196325000290 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1196325000291 aldolase II superfamily protein; Provisional; Region: PRK07044 1196325000292 intersubunit interface [polypeptide binding]; other site 1196325000293 active site 1196325000294 Zn2+ binding site [ion binding]; other site 1196325000295 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1196325000296 EamA-like transporter family; Region: EamA; pfam00892 1196325000297 Uncharacterized conserved protein [Function unknown]; Region: COG0393 1196325000298 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1196325000299 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 1196325000300 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1196325000301 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1196325000302 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1196325000303 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1196325000304 GTP binding site; other site 1196325000305 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1196325000306 Protein export membrane protein; Region: SecD_SecF; cl14618 1196325000307 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1196325000308 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 1196325000309 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325000310 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196325000311 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 1196325000312 active site 1196325000313 phosphorylation site [posttranslational modification] 1196325000314 intermolecular recognition site; other site 1196325000315 dimerization interface [polypeptide binding]; other site 1196325000316 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 1196325000317 DNA binding site [nucleotide binding] 1196325000318 sensor protein RstB; Provisional; Region: PRK10604 1196325000319 HAMP domain; Region: HAMP; pfam00672 1196325000320 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 1196325000321 dimer interface [polypeptide binding]; other site 1196325000322 phosphorylation site [posttranslational modification] 1196325000323 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 1196325000324 ATP binding site [chemical binding]; other site 1196325000325 Mg2+ binding site [ion binding]; other site 1196325000326 G-X-G motif; other site 1196325000327 Predicted membrane protein [Function unknown]; Region: COG4125 1196325000328 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1196325000329 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1196325000330 threonine dehydratase; Reviewed; Region: PRK12483 1196325000331 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 1196325000332 tetramer interface [polypeptide binding]; other site 1196325000333 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325000334 catalytic residue [active] 1196325000335 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1196325000336 putative Ile/Val binding site [chemical binding]; other site 1196325000337 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1196325000338 putative Ile/Val binding site [chemical binding]; other site 1196325000339 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 1196325000340 putative dimer interface [polypeptide binding]; other site 1196325000341 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196325000342 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 1196325000343 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1196325000344 tetrameric interface [polypeptide binding]; other site 1196325000345 activator binding site; other site 1196325000346 NADP binding site [chemical binding]; other site 1196325000347 substrate binding site [chemical binding]; other site 1196325000348 catalytic residues [active] 1196325000349 Protein of unknown function (DUF563); Region: DUF563; pfam04577 1196325000350 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196325000351 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1196325000352 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1196325000353 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 1196325000354 Transporter associated domain; Region: CorC_HlyC; smart01091 1196325000355 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1196325000356 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 1196325000357 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 1196325000358 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1196325000359 dimer interface [polypeptide binding]; other site 1196325000360 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1196325000361 active site 1196325000362 Fe binding site [ion binding]; other site 1196325000363 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1196325000364 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1196325000365 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1196325000366 potential catalytic triad [active] 1196325000367 conserved cys residue [active] 1196325000368 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 1196325000369 PAS domain; Region: PAS_9; pfam13426 1196325000370 putative active site [active] 1196325000371 heme pocket [chemical binding]; other site 1196325000372 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 1196325000373 ATP binding site [chemical binding]; other site 1196325000374 Mg2+ binding site [ion binding]; other site 1196325000375 G-X-G motif; other site 1196325000376 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 1196325000377 active site 1196325000378 phosphorylation site [posttranslational modification] 1196325000379 intermolecular recognition site; other site 1196325000380 dimerization interface [polypeptide binding]; other site 1196325000381 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1196325000382 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 1196325000383 ATP binding site [chemical binding]; other site 1196325000384 Mg2+ binding site [ion binding]; other site 1196325000385 G-X-G motif; other site 1196325000386 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325000387 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 1196325000388 active site 1196325000389 phosphorylation site [posttranslational modification] 1196325000390 intermolecular recognition site; other site 1196325000391 dimerization interface [polypeptide binding]; other site 1196325000392 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 1196325000393 binding surface 1196325000394 TPR motif; other site 1196325000395 TPR repeat; Region: TPR_11; pfam13414 1196325000396 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1196325000397 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1196325000398 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325000399 Coenzyme A binding pocket [chemical binding]; other site 1196325000400 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1196325000401 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1196325000402 Walker A/P-loop; other site 1196325000403 ATP binding site [chemical binding]; other site 1196325000404 Q-loop/lid; other site 1196325000405 ABC transporter signature motif; other site 1196325000406 Walker B; other site 1196325000407 D-loop; other site 1196325000408 H-loop/switch region; other site 1196325000409 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1196325000410 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1196325000411 Walker A/P-loop; other site 1196325000412 ATP binding site [chemical binding]; other site 1196325000413 Q-loop/lid; other site 1196325000414 ABC transporter signature motif; other site 1196325000415 Walker B; other site 1196325000416 D-loop; other site 1196325000417 H-loop/switch region; other site 1196325000418 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1196325000419 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 1196325000420 TM-ABC transporter signature motif; other site 1196325000421 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 1196325000422 TM-ABC transporter signature motif; other site 1196325000423 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325000424 benzoate transport; Region: 2A0115; TIGR00895 1196325000425 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 1196325000426 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1196325000427 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1196325000428 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1196325000429 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 1196325000430 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1196325000431 putative C-terminal domain interface [polypeptide binding]; other site 1196325000432 putative GSH binding site (G-site) [chemical binding]; other site 1196325000433 putative dimer interface [polypeptide binding]; other site 1196325000434 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1196325000435 N-terminal domain interface [polypeptide binding]; other site 1196325000436 conserverd hypothetical protein; Region: TIGR02448 1196325000437 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 1196325000438 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325000439 DNA-binding site [nucleotide binding]; DNA binding site 1196325000440 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1196325000441 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1196325000442 FAD binding domain; Region: FAD_binding_4; pfam01565 1196325000443 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1196325000444 FAD binding domain; Region: FAD_binding_4; pfam01565 1196325000445 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1196325000446 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 1196325000447 Cysteine-rich domain; Region: CCG; pfam02754 1196325000448 Cysteine-rich domain; Region: CCG; pfam02754 1196325000449 Domain of unknown function (DUF336); Region: DUF336; cl01249 1196325000450 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 1196325000451 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325000452 DNA-binding site [nucleotide binding]; DNA binding site 1196325000453 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 1196325000454 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325000455 homodimer interface [polypeptide binding]; other site 1196325000456 catalytic residue [active] 1196325000457 putative cyanate transporter; Provisional; Region: cynX; PRK09705 1196325000458 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1196325000459 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1196325000460 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1196325000461 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196325000462 SurA N-terminal domain; Region: SurA_N; pfam09312 1196325000463 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325000464 beta-ketothiolase; Provisional; Region: PRK09051 1196325000465 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 1196325000466 dimer interface [polypeptide binding]; other site 1196325000467 active site 1196325000468 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 1196325000469 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1196325000470 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196325000471 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196325000472 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325000473 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325000474 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 1196325000475 active site 1196325000476 phosphorylation site [posttranslational modification] 1196325000477 intermolecular recognition site; other site 1196325000478 dimerization interface [polypeptide binding]; other site 1196325000479 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325000480 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 1196325000481 active site 1196325000482 phosphorylation site [posttranslational modification] 1196325000483 intermolecular recognition site; other site 1196325000484 dimerization interface [polypeptide binding]; other site 1196325000485 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325000486 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 1196325000487 dimer interface [polypeptide binding]; other site 1196325000488 phosphorylation site [posttranslational modification] 1196325000489 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 1196325000490 ATP binding site [chemical binding]; other site 1196325000491 Mg2+ binding site [ion binding]; other site 1196325000492 G-X-G motif; other site 1196325000493 CheB methylesterase; Region: CheB_methylest; pfam01339 1196325000494 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1196325000495 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1196325000496 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1196325000497 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325000498 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 1196325000499 active site 1196325000500 phosphorylation site [posttranslational modification] 1196325000501 intermolecular recognition site; other site 1196325000502 dimerization interface [polypeptide binding]; other site 1196325000503 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196325000504 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 1196325000505 active site 1196325000506 phosphorylation site [posttranslational modification] 1196325000507 intermolecular recognition site; other site 1196325000508 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325000509 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 1196325000510 active site 1196325000511 phosphorylation site [posttranslational modification] 1196325000512 intermolecular recognition site; other site 1196325000513 dimerization interface [polypeptide binding]; other site 1196325000514 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1196325000515 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1196325000516 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1196325000517 putative NAD(P) binding site [chemical binding]; other site 1196325000518 Staphylococcal nuclease homologues; Region: SNc; smart00318 1196325000519 Catalytic site; other site 1196325000520 Staphylococcal nuclease homologue; Region: SNase; pfam00565 1196325000521 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1196325000522 primosome assembly protein PriA; Validated; Region: PRK05580 1196325000523 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 1196325000524 ATP binding site [chemical binding]; other site 1196325000525 putative Mg++ binding site [ion binding]; other site 1196325000526 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1196325000527 ATP-binding site [chemical binding]; other site 1196325000528 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1196325000529 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1196325000530 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1196325000531 active site 1196325000532 HIGH motif; other site 1196325000533 KMSK motif region; other site 1196325000534 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1196325000535 tRNA binding surface [nucleotide binding]; other site 1196325000536 anticodon binding site; other site 1196325000537 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 1196325000538 Sporulation related domain; Region: SPOR; pfam05036 1196325000539 TM2 domain; Region: TM2; cl00984 1196325000540 TM2 domain; Region: TM2; cl00984 1196325000541 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1196325000542 NlpC/P60 family; Region: NLPC_P60; pfam00877 1196325000543 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 1196325000544 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 1196325000545 Walker A motif; other site 1196325000546 ATP binding site [chemical binding]; other site 1196325000547 Walker B motif; other site 1196325000548 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1196325000549 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1196325000550 catalytic residue [active] 1196325000551 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1196325000552 pyrroline-5-carboxylate reductase; Region: PLN02688 1196325000553 YGGT family; Region: YGGT; pfam02325 1196325000554 YGGT family; Region: YGGT; pfam02325 1196325000555 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1196325000556 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1196325000557 hypothetical protein; Provisional; Region: PRK08317 1196325000558 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 1196325000559 S-adenosylmethionine binding site [chemical binding]; other site 1196325000560 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 1196325000561 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 1196325000562 active site 1196325000563 dimerization interface [polypeptide binding]; other site 1196325000564 HemN family oxidoreductase; Provisional; Region: PRK05660 1196325000565 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 1196325000566 FeS/SAM binding site; other site 1196325000567 HemN C-terminal domain; Region: HemN_C; pfam06969 1196325000568 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 1196325000569 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1196325000570 Transglycosylase; Region: Transgly; pfam00912 1196325000571 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1196325000572 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1196325000573 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1196325000574 G1 box; other site 1196325000575 putative GEF interaction site [polypeptide binding]; other site 1196325000576 GTP/Mg2+ binding site [chemical binding]; other site 1196325000577 Switch I region; other site 1196325000578 G2 box; other site 1196325000579 G3 box; other site 1196325000580 Switch II region; other site 1196325000581 G4 box; other site 1196325000582 G5 box; other site 1196325000583 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 1196325000584 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 1196325000585 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1196325000586 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1196325000587 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 1196325000588 Ligand Binding Site [chemical binding]; other site 1196325000589 thiazole biosynthesis domain; Region: ThiI_C_thiazole; TIGR04271 1196325000590 glutamine synthetase; Provisional; Region: glnA; PRK09469 1196325000591 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1196325000592 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1196325000593 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1196325000594 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 1196325000595 dimer interface [polypeptide binding]; other site 1196325000596 phosphorylation site [posttranslational modification] 1196325000597 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 1196325000598 ATP binding site [chemical binding]; other site 1196325000599 Mg2+ binding site [ion binding]; other site 1196325000600 G-X-G motif; other site 1196325000601 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1196325000602 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 1196325000603 active site 1196325000604 phosphorylation site [posttranslational modification] 1196325000605 intermolecular recognition site; other site 1196325000606 dimerization interface [polypeptide binding]; other site 1196325000607 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 1196325000608 Walker A motif; other site 1196325000609 ATP binding site [chemical binding]; other site 1196325000610 Walker B motif; other site 1196325000611 arginine finger; other site 1196325000612 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196325000613 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1196325000614 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 1196325000615 SecA binding site; other site 1196325000616 Preprotein binding site; other site 1196325000617 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 1196325000618 GSH binding site [chemical binding]; other site 1196325000619 catalytic residues [active] 1196325000620 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 1196325000621 active site residue [active] 1196325000622 phosphoglyceromutase; Provisional; Region: PRK05434 1196325000623 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 1196325000624 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1196325000625 Peptidase family M23; Region: Peptidase_M23; pfam01551 1196325000626 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1196325000627 C-terminal peptidase (prc); Region: prc; TIGR00225 1196325000628 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 1196325000629 protein binding site [polypeptide binding]; other site 1196325000630 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1196325000631 Catalytic dyad [active] 1196325000632 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1196325000633 NodB motif; other site 1196325000634 putative active site [active] 1196325000635 putative catalytic site [active] 1196325000636 Zn binding site [ion binding]; other site 1196325000637 BCCT family transporter; Region: BCCT; cl00569 1196325000638 transcriptional regulator BetI; Validated; Region: PRK00767 1196325000639 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325000640 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1196325000641 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1196325000642 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1196325000643 NAD(P) binding site [chemical binding]; other site 1196325000644 catalytic residues [active] 1196325000645 choline dehydrogenase; Validated; Region: PRK02106 1196325000646 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1196325000647 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1196325000648 potassium/proton antiporter; Reviewed; Region: PRK05326 1196325000649 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1196325000650 TrkA-C domain; Region: TrkA_C; pfam02080 1196325000651 Transporter associated domain; Region: CorC_HlyC; smart01091 1196325000652 hypothetical protein; Provisional; Region: PRK11281 1196325000653 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1196325000654 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1196325000655 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1196325000656 hypothetical protein; Validated; Region: PRK00029 1196325000657 thioredoxin 2; Provisional; Region: PRK10996 1196325000658 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 1196325000659 catalytic residues [active] 1196325000660 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1196325000661 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 1196325000662 P-loop; other site 1196325000663 Magnesium ion binding site [ion binding]; other site 1196325000664 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 1196325000665 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325000666 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325000667 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 1196325000668 dimerization interface [polypeptide binding]; other site 1196325000669 substrate binding pocket [chemical binding]; other site 1196325000670 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 1196325000671 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196325000672 putative substrate translocation pore; other site 1196325000673 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1196325000674 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1196325000675 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 1196325000676 substrate binding site [chemical binding]; other site 1196325000677 active site 1196325000678 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1196325000679 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196325000680 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1196325000681 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 1196325000682 active site 1196325000683 dimer interface [polypeptide binding]; other site 1196325000684 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1196325000685 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 1196325000686 active site 1196325000687 FMN binding site [chemical binding]; other site 1196325000688 substrate binding site [chemical binding]; other site 1196325000689 3Fe-4S cluster binding site [ion binding]; other site 1196325000690 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 1196325000691 domain interface; other site 1196325000692 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1196325000693 Sporulation related domain; Region: SPOR; pfam05036 1196325000694 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1196325000695 active site 1196325000696 dimer interface [polypeptide binding]; other site 1196325000697 metal binding site [ion binding]; metal-binding site 1196325000698 shikimate kinase; Reviewed; Region: aroK; PRK00131 1196325000699 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 1196325000700 ADP binding site [chemical binding]; other site 1196325000701 magnesium binding site [ion binding]; other site 1196325000702 putative shikimate binding site; other site 1196325000703 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1196325000704 Secretin and TonB N terminus short domain; Region: STN; smart00965 1196325000705 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1196325000706 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1196325000707 Pilus assembly protein, PilO; Region: PilO; cl01234 1196325000708 Pilus assembly protein, PilP; Region: PilP; pfam04351 1196325000709 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1196325000710 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1196325000711 Competence protein A; Region: Competence_A; pfam11104 1196325000712 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1196325000713 pyruvate kinase; Provisional; Region: PRK05826 1196325000714 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 1196325000715 domain interfaces; other site 1196325000716 active site 1196325000717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1196325000718 PilZ domain; Region: PilZ; pfam07238 1196325000719 exonuclease I; Provisional; Region: sbcB; PRK11779 1196325000720 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1196325000721 active site 1196325000722 catalytic site [active] 1196325000723 substrate binding site [chemical binding]; other site 1196325000724 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1196325000725 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1196325000726 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1196325000727 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1196325000728 putative active site [active] 1196325000729 putative substrate binding site [chemical binding]; other site 1196325000730 putative cosubstrate binding site; other site 1196325000731 catalytic site [active] 1196325000732 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1196325000733 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 1196325000734 Predicted deacetylase [General function prediction only]; Region: COG3233 1196325000735 putative active site [active] 1196325000736 putative Zn binding site [ion binding]; other site 1196325000737 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196325000738 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 1196325000739 Cache domain; Region: Cache_1; pfam02743 1196325000740 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 1196325000741 dimerization interface [polypeptide binding]; other site 1196325000742 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325000743 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325000744 dimer interface [polypeptide binding]; other site 1196325000745 putative CheW interface [polypeptide binding]; other site 1196325000746 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1196325000747 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1196325000748 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1196325000749 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1196325000750 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1196325000751 Bacterial transcriptional regulator; Region: IclR; pfam01614 1196325000752 benzoate transport; Region: 2A0115; TIGR00895 1196325000753 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 1196325000754 putative substrate translocation pore; other site 1196325000755 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 1196325000756 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1196325000757 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 1196325000758 dimer interface [polypeptide binding]; other site 1196325000759 active site 1196325000760 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1196325000761 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 1196325000762 putative substrate translocation pore; other site 1196325000763 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 1196325000764 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1196325000765 tetramer interface [polypeptide binding]; other site 1196325000766 active site 1196325000767 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1196325000768 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1196325000769 Predicted membrane protein [Function unknown]; Region: COG4539 1196325000770 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325000771 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1196325000772 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1196325000773 Protein export membrane protein; Region: SecD_SecF; cl14618 1196325000774 Protein export membrane protein; Region: SecD_SecF; cl14618 1196325000775 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1196325000776 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325000777 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325000778 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1196325000779 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325000780 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1196325000781 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 1196325000782 putative substrate translocation pore; other site 1196325000783 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 1196325000784 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 1196325000785 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1196325000786 tetramer interface [polypeptide binding]; other site 1196325000787 active site 1196325000788 Mg2+/Mn2+ binding site [ion binding]; other site 1196325000789 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325000790 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325000791 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 1196325000792 putative effector binding pocket; other site 1196325000793 dimerization interface [polypeptide binding]; other site 1196325000794 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1196325000795 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1196325000796 NAD binding site [chemical binding]; other site 1196325000797 substrate binding site [chemical binding]; other site 1196325000798 putative active site [active] 1196325000799 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1196325000800 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325000801 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 1196325000802 substrate binding pocket [chemical binding]; other site 1196325000803 dimerization interface [polypeptide binding]; other site 1196325000804 hypothetical protein; Provisional; Region: PRK07524 1196325000805 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1196325000806 PYR/PP interface [polypeptide binding]; other site 1196325000807 dimer interface [polypeptide binding]; other site 1196325000808 TPP binding site [chemical binding]; other site 1196325000809 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1196325000810 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 1196325000811 TPP-binding site [chemical binding]; other site 1196325000812 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1196325000813 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196325000814 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325000815 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1196325000816 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1196325000817 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1196325000818 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 1196325000819 putative substrate translocation pore; other site 1196325000820 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1196325000821 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 1196325000822 active site 1196325000823 phosphorylation site [posttranslational modification] 1196325000824 intermolecular recognition site; other site 1196325000825 dimerization interface [polypeptide binding]; other site 1196325000826 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 1196325000827 Walker A motif; other site 1196325000828 ATP binding site [chemical binding]; other site 1196325000829 Walker B motif; other site 1196325000830 arginine finger; other site 1196325000831 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196325000832 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 1196325000833 dimer interface [polypeptide binding]; other site 1196325000834 phosphorylation site [posttranslational modification] 1196325000835 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 1196325000836 ATP binding site [chemical binding]; other site 1196325000837 Mg2+ binding site [ion binding]; other site 1196325000838 G-X-G motif; other site 1196325000839 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1196325000840 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1196325000841 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1196325000842 Repair protein; Region: Repair_PSII; cl01535 1196325000843 Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT); Region: PCMT; pfam01135 1196325000844 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1196325000845 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 1196325000846 S-adenosylmethionine binding site [chemical binding]; other site 1196325000847 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1196325000848 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1196325000849 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1196325000850 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 1196325000851 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196325000852 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1196325000853 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 1196325000854 RNA binding surface [nucleotide binding]; other site 1196325000855 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1196325000856 active site 1196325000857 uracil binding [chemical binding]; other site 1196325000858 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325000859 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325000860 metal binding site [ion binding]; metal-binding site 1196325000861 active site 1196325000862 I-site; other site 1196325000863 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1196325000864 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 1196325000865 substrate binding site [chemical binding]; other site 1196325000866 oxyanion hole (OAH) forming residues; other site 1196325000867 trimer interface [polypeptide binding]; other site 1196325000868 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1196325000869 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1196325000870 ligand binding site [chemical binding]; other site 1196325000871 active site 1196325000872 UGI interface [polypeptide binding]; other site 1196325000873 catalytic site [active] 1196325000874 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1196325000875 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 1196325000876 putative active site [active] 1196325000877 putative metal binding site [ion binding]; other site 1196325000878 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1196325000879 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1196325000880 Putative ammonia monooxygenase; Region: AmoA; pfam05145 1196325000881 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1196325000882 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1196325000883 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1196325000884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1196325000885 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325000886 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1196325000887 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 1196325000888 active site 1196325000889 phosphorylation site [posttranslational modification] 1196325000890 intermolecular recognition site; other site 1196325000891 dimerization interface [polypeptide binding]; other site 1196325000892 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 1196325000893 DNA binding site [nucleotide binding] 1196325000894 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1196325000895 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 1196325000896 dimerization interface [polypeptide binding]; other site 1196325000897 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 1196325000898 dimer interface [polypeptide binding]; other site 1196325000899 phosphorylation site [posttranslational modification] 1196325000900 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 1196325000901 ATP binding site [chemical binding]; other site 1196325000902 Mg2+ binding site [ion binding]; other site 1196325000903 G-X-G motif; other site 1196325000904 HDOD domain; Region: HDOD; pfam08668 1196325000905 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1196325000906 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1196325000907 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1196325000908 L-aspartate oxidase; Provisional; Region: PRK09077 1196325000909 L-aspartate oxidase; Provisional; Region: PRK06175 1196325000910 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1196325000911 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1196325000912 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325000913 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 1196325000914 DNA binding residues [nucleotide binding] 1196325000915 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1196325000916 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1196325000917 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1196325000918 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1196325000919 MucB/RseB family; Region: MucB_RseB; pfam03888 1196325000920 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1196325000921 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1196325000922 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 1196325000923 protein binding site [polypeptide binding]; other site 1196325000924 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 1196325000925 protein binding site [polypeptide binding]; other site 1196325000926 GTP-binding protein LepA; Provisional; Region: PRK05433 1196325000927 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1196325000928 G1 box; other site 1196325000929 putative GEF interaction site [polypeptide binding]; other site 1196325000930 GTP/Mg2+ binding site [chemical binding]; other site 1196325000931 Switch I region; other site 1196325000932 G2 box; other site 1196325000933 G3 box; other site 1196325000934 Switch II region; other site 1196325000935 G4 box; other site 1196325000936 G5 box; other site 1196325000937 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 1196325000938 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 1196325000939 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1196325000940 signal peptidase I; Provisional; Region: PRK10861 1196325000941 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 1196325000942 Catalytic site [active] 1196325000943 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 1196325000944 ribonuclease III; Reviewed; Region: rnc; PRK00102 1196325000945 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 1196325000946 dimerization interface [polypeptide binding]; other site 1196325000947 active site 1196325000948 metal binding site [ion binding]; metal-binding site 1196325000949 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 1196325000950 dsRNA binding site [nucleotide binding]; other site 1196325000951 GTPase Era; Reviewed; Region: era; PRK00089 1196325000952 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1196325000953 G1 box; other site 1196325000954 GTP/Mg2+ binding site [chemical binding]; other site 1196325000955 Switch I region; other site 1196325000956 G2 box; other site 1196325000957 Switch II region; other site 1196325000958 G3 box; other site 1196325000959 G4 box; other site 1196325000960 G5 box; other site 1196325000961 KH domain; Region: KH_2; pfam07650 1196325000962 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1196325000963 Recombination protein O N terminal; Region: RecO_N; pfam11967 1196325000964 Recombination protein O C terminal; Region: RecO_C; pfam02565 1196325000965 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 1196325000966 active site 1196325000967 hydrophilic channel; other site 1196325000968 dimerization interface [polypeptide binding]; other site 1196325000969 catalytic residues [active] 1196325000970 active site lid [active] 1196325000971 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1196325000972 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 1196325000973 dimerization interface [polypeptide binding]; other site 1196325000974 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 1196325000975 dimer interface [polypeptide binding]; other site 1196325000976 phosphorylation site [posttranslational modification] 1196325000977 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 1196325000978 ATP binding site [chemical binding]; other site 1196325000979 Mg2+ binding site [ion binding]; other site 1196325000980 G-X-G motif; other site 1196325000981 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1196325000982 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 1196325000983 active site 1196325000984 phosphorylation site [posttranslational modification] 1196325000985 intermolecular recognition site; other site 1196325000986 dimerization interface [polypeptide binding]; other site 1196325000987 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 1196325000988 DNA binding site [nucleotide binding] 1196325000989 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1196325000990 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 1196325000991 S-adenosylmethionine binding site [chemical binding]; other site 1196325000992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325000993 active site 1196325000994 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 1196325000995 S-adenosylmethionine binding site [chemical binding]; other site 1196325000996 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 1196325000997 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 1196325000998 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 1196325000999 thiamine pyrophosphate protein; Provisional; Region: PRK08273 1196325001000 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1196325001001 PYR/PP interface [polypeptide binding]; other site 1196325001002 dimer interface [polypeptide binding]; other site 1196325001003 tetramer interface [polypeptide binding]; other site 1196325001004 TPP binding site [chemical binding]; other site 1196325001005 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1196325001006 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 1196325001007 TPP-binding site [chemical binding]; other site 1196325001008 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1196325001009 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1196325001010 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1196325001011 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1196325001012 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1196325001013 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1196325001014 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1196325001015 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1196325001016 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1196325001017 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1196325001018 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_10; cd04667 1196325001019 nudix motif; other site 1196325001020 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1196325001021 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1196325001022 NAD binding site [chemical binding]; other site 1196325001023 catalytic Zn binding site [ion binding]; other site 1196325001024 structural Zn binding site [ion binding]; other site 1196325001025 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1196325001026 short chain dehydrogenase; Provisional; Region: PRK06139 1196325001027 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 1196325001028 putative NAD(P) binding site [chemical binding]; other site 1196325001029 active site 1196325001030 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1196325001031 GAF domain; Region: GAF; pfam01590 1196325001032 PAS fold; Region: PAS_4; pfam08448 1196325001033 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 1196325001034 putative active site [active] 1196325001035 heme pocket [chemical binding]; other site 1196325001036 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1196325001037 Histidine kinase; Region: HisKA_2; pfam07568 1196325001038 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 1196325001039 ATP binding site [chemical binding]; other site 1196325001040 Mg2+ binding site [ion binding]; other site 1196325001041 G-X-G motif; other site 1196325001042 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1196325001043 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1196325001044 Low affinity iron permease; Region: Iron_permease; pfam04120 1196325001045 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196325001046 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 1196325001047 active site 1196325001048 phosphorylation site [posttranslational modification] 1196325001049 intermolecular recognition site; other site 1196325001050 dimerization interface [polypeptide binding]; other site 1196325001051 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1196325001052 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1196325001053 metal binding site [ion binding]; metal-binding site 1196325001054 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1196325001055 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1196325001056 NAD binding site [chemical binding]; other site 1196325001057 metal binding site [ion binding]; metal-binding site 1196325001058 active site 1196325001059 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1196325001060 Predicted membrane protein [Function unknown]; Region: COG2323 1196325001061 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1196325001062 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1196325001063 Hemerythrin-like domain; Region: Hr-like; cd12108 1196325001064 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 1196325001065 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 1196325001066 NAD binding site [chemical binding]; other site 1196325001067 catalytic Zn binding site [ion binding]; other site 1196325001068 structural Zn binding site [ion binding]; other site 1196325001069 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 1196325001070 putative catalytic site [active] 1196325001071 putative phosphate binding site [ion binding]; other site 1196325001072 active site 1196325001073 metal binding site A [ion binding]; metal-binding site 1196325001074 DNA binding site [nucleotide binding] 1196325001075 putative AP binding site [nucleotide binding]; other site 1196325001076 putative metal binding site B [ion binding]; other site 1196325001077 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1196325001078 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1196325001079 proposed catalytic triad [active] 1196325001080 conserved cys residue [active] 1196325001081 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1196325001082 glutathione reductase; Validated; Region: PRK06116 1196325001083 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196325001084 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196325001085 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1196325001086 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 1196325001087 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196325001088 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196325001089 ligand binding site [chemical binding]; other site 1196325001090 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1196325001091 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325001092 Walker A/P-loop; other site 1196325001093 ATP binding site [chemical binding]; other site 1196325001094 Q-loop/lid; other site 1196325001095 ABC transporter signature motif; other site 1196325001096 Walker B; other site 1196325001097 D-loop; other site 1196325001098 H-loop/switch region; other site 1196325001099 TOBE domain; Region: TOBE_2; pfam08402 1196325001100 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1196325001101 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 1196325001102 dimer interface [polypeptide binding]; other site 1196325001103 conserved gate region; other site 1196325001104 putative PBP binding loops; other site 1196325001105 ABC-ATPase subunit interface; other site 1196325001106 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 1196325001107 dimer interface [polypeptide binding]; other site 1196325001108 conserved gate region; other site 1196325001109 putative PBP binding loops; other site 1196325001110 ABC-ATPase subunit interface; other site 1196325001111 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1196325001112 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1196325001113 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK12485 1196325001114 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1196325001115 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1196325001116 dimerization interface [polypeptide binding]; other site 1196325001117 active site 1196325001118 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1196325001119 pantothenate kinase; Reviewed; Region: PRK13322 1196325001120 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1196325001121 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1196325001122 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1196325001123 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325001124 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 1196325001125 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1196325001126 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1196325001127 Protein of unknown function (DUF330); Region: DUF330; cl01135 1196325001128 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1196325001129 mce related protein; Region: MCE; pfam02470 1196325001130 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1196325001131 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325001132 Walker A/P-loop; other site 1196325001133 ATP binding site [chemical binding]; other site 1196325001134 Q-loop/lid; other site 1196325001135 ABC transporter signature motif; other site 1196325001136 Walker B; other site 1196325001137 D-loop; other site 1196325001138 H-loop/switch region; other site 1196325001139 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1196325001140 Permease; Region: Permease; pfam02405 1196325001141 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 1196325001142 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1196325001143 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1196325001144 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1196325001145 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1196325001146 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1196325001147 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1196325001148 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1196325001149 Citrate transporter; Region: CitMHS; pfam03600 1196325001150 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1196325001151 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1196325001152 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1196325001153 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1196325001154 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1196325001155 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196325001156 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 1196325001157 DNA binding residues [nucleotide binding] 1196325001158 dimerization interface [polypeptide binding]; other site 1196325001159 putative aminotransferase; Provisional; Region: PRK12403 1196325001160 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 1196325001161 inhibitor-cofactor binding pocket; inhibition site 1196325001162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325001163 catalytic residue [active] 1196325001164 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1196325001165 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1196325001166 NAD(P) binding site [chemical binding]; other site 1196325001167 catalytic residues [active] 1196325001168 Cache domain; Region: Cache_1; pfam02743 1196325001169 GAF domain; Region: GAF_2; pfam13185 1196325001170 GAF domain; Region: GAF_3; pfam13492 1196325001171 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1196325001172 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 1196325001173 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1196325001174 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1196325001175 Bacterial transcriptional regulator; Region: IclR; pfam01614 1196325001176 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1196325001177 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1196325001178 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1196325001179 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 1196325001180 D-galactonate transporter; Region: 2A0114; TIGR00893 1196325001181 putative substrate translocation pore; other site 1196325001182 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 1196325001183 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1196325001184 NIPSNAP; Region: NIPSNAP; pfam07978 1196325001185 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 1196325001186 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1196325001187 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 1196325001188 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1196325001189 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1196325001190 shikimate binding site; other site 1196325001191 NAD(P) binding site [chemical binding]; other site 1196325001192 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1196325001193 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1196325001194 Bacterial transcriptional regulator; Region: IclR; pfam01614 1196325001195 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 1196325001196 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 1196325001197 Ligand Binding Site [chemical binding]; other site 1196325001198 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 1196325001199 Ligand Binding Site [chemical binding]; other site 1196325001200 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1196325001201 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 1196325001202 putative substrate translocation pore; other site 1196325001203 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 1196325001204 magnesium-transporting ATPase; Provisional; Region: PRK15122 1196325001205 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1196325001206 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1196325001207 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1196325001208 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1196325001209 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1196325001210 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 1196325001211 dimerization interface [polypeptide binding]; other site 1196325001212 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325001213 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325001214 dimer interface [polypeptide binding]; other site 1196325001215 putative CheW interface [polypeptide binding]; other site 1196325001216 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 1196325001217 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325001218 DNA-binding site [nucleotide binding]; DNA binding site 1196325001219 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 1196325001220 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325001221 homodimer interface [polypeptide binding]; other site 1196325001222 catalytic residue [active] 1196325001223 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1196325001224 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 1196325001225 catalytic loop [active] 1196325001226 iron binding site [ion binding]; other site 1196325001227 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 1196325001228 FAD binding pocket [chemical binding]; other site 1196325001229 FAD binding motif [chemical binding]; other site 1196325001230 phosphate binding motif [ion binding]; other site 1196325001231 beta-alpha-beta structure motif; other site 1196325001232 NAD binding pocket [chemical binding]; other site 1196325001233 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 1196325001234 active site 1196325001235 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1196325001236 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325001237 Coenzyme A binding pocket [chemical binding]; other site 1196325001238 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1196325001239 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1196325001240 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1196325001241 dimer interface [polypeptide binding]; other site 1196325001242 active site 1196325001243 catalytic residue [active] 1196325001244 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 1196325001245 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 1196325001246 binding surface 1196325001247 TPR motif; other site 1196325001248 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 1196325001249 binding surface 1196325001250 TPR motif; other site 1196325001251 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 1196325001252 endo-1,4-D-glucanase; Provisional; Region: PRK11097 1196325001253 cellulose synthase regulator protein; Provisional; Region: PRK11114 1196325001254 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 1196325001255 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1196325001256 DXD motif; other site 1196325001257 PilZ domain; Region: PilZ; pfam07238 1196325001258 YhjQ protein; Region: YhjQ; pfam06564 1196325001259 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 1196325001260 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 1196325001261 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 1196325001262 Protein of unknown function (DUF2819); Region: DUF2819; cl17862 1196325001263 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1196325001264 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1196325001265 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325001266 Walker A/P-loop; other site 1196325001267 ATP binding site [chemical binding]; other site 1196325001268 Q-loop/lid; other site 1196325001269 ABC transporter signature motif; other site 1196325001270 Walker B; other site 1196325001271 D-loop; other site 1196325001272 H-loop/switch region; other site 1196325001273 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1196325001274 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1196325001275 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1196325001276 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1196325001277 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 1196325001278 Protein of unknown function (DUF3121); Region: DUF3121; pfam11319 1196325001279 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1196325001280 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1196325001281 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1196325001282 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1196325001283 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1196325001284 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 1196325001285 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 1196325001286 FHA domain; Region: FHA; pfam00498 1196325001287 phosphopeptide binding site; other site 1196325001288 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1196325001289 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1196325001290 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1196325001291 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1196325001292 Condensation domain; Region: Condensation; pfam00668 1196325001293 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1196325001294 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1196325001295 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1196325001296 acyl-activating enzyme (AAE) consensus motif; other site 1196325001297 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1196325001298 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1196325001299 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1196325001300 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1196325001301 Predicted membrane protein [Function unknown]; Region: COG3821 1196325001302 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1196325001303 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1196325001304 CoA binding domain; Region: CoA_binding; pfam02629 1196325001305 CoA-ligase; Region: Ligase_CoA; pfam00549 1196325001306 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1196325001307 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1196325001308 CoA-ligase; Region: Ligase_CoA; pfam00549 1196325001309 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1196325001310 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1196325001311 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196325001312 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1196325001313 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1196325001314 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 1196325001315 E3 interaction surface; other site 1196325001316 lipoyl attachment site [posttranslational modification]; other site 1196325001317 e3 binding domain; Region: E3_binding; pfam02817 1196325001318 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1196325001319 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1196325001320 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 1196325001321 TPP-binding site [chemical binding]; other site 1196325001322 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1196325001323 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1196325001324 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1196325001325 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 1196325001326 L-aspartate oxidase; Provisional; Region: PRK06175 1196325001327 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1196325001328 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 1196325001329 SdhC subunit interface [polypeptide binding]; other site 1196325001330 proximal heme binding site [chemical binding]; other site 1196325001331 cardiolipin binding site; other site 1196325001332 Iron-sulfur protein interface; other site 1196325001333 proximal quinone binding site [chemical binding]; other site 1196325001334 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 1196325001335 Iron-sulfur protein interface; other site 1196325001336 proximal quinone binding site [chemical binding]; other site 1196325001337 SdhD (CybS) interface [polypeptide binding]; other site 1196325001338 proximal heme binding site [chemical binding]; other site 1196325001339 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 1196325001340 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1196325001341 dimer interface [polypeptide binding]; other site 1196325001342 active site 1196325001343 citrylCoA binding site [chemical binding]; other site 1196325001344 NADH binding [chemical binding]; other site 1196325001345 cationic pore residues; other site 1196325001346 oxalacetate/citrate binding site [chemical binding]; other site 1196325001347 coenzyme A binding site [chemical binding]; other site 1196325001348 catalytic triad [active] 1196325001349 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 1196325001350 putative lipid binding site [chemical binding]; other site 1196325001351 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 1196325001352 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325001353 DNA-binding site [nucleotide binding]; DNA binding site 1196325001354 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 1196325001355 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325001356 homodimer interface [polypeptide binding]; other site 1196325001357 catalytic residue [active] 1196325001358 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196325001359 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196325001360 ligand binding site [chemical binding]; other site 1196325001361 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1196325001362 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 1196325001363 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325001364 substrate binding pocket [chemical binding]; other site 1196325001365 membrane-bound complex binding site; other site 1196325001366 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1196325001367 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 1196325001368 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1196325001369 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 1196325001370 Ligand binding site [chemical binding]; other site 1196325001371 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1196325001372 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1196325001373 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196325001374 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1196325001375 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 1196325001376 toxin interface [polypeptide binding]; other site 1196325001377 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 1196325001378 Zn binding site [ion binding]; other site 1196325001379 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 1196325001380 non-specific DNA binding site [nucleotide binding]; other site 1196325001381 salt bridge; other site 1196325001382 sequence-specific DNA binding site [nucleotide binding]; other site 1196325001383 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 1196325001384 peptide binding site [polypeptide binding]; other site 1196325001385 metabolite-proton symporter; Region: 2A0106; TIGR00883 1196325001386 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 1196325001387 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 1196325001388 RNA polymerase sigma factor; Reviewed; Region: PRK12527 1196325001389 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325001390 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 1196325001391 DNA binding residues [nucleotide binding] 1196325001392 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 1196325001393 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1196325001394 active site 1196325001395 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 1196325001396 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1196325001397 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 1196325001398 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196325001399 catalytic residue [active] 1196325001400 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1196325001401 Cupin-like domain; Region: Cupin_8; pfam13621 1196325001402 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 1196325001403 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 1196325001404 inhibitor-cofactor binding pocket; inhibition site 1196325001405 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325001406 catalytic residue [active] 1196325001407 sensor protein QseC; Provisional; Region: PRK10337 1196325001408 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 1196325001409 dimer interface [polypeptide binding]; other site 1196325001410 phosphorylation site [posttranslational modification] 1196325001411 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 1196325001412 ATP binding site [chemical binding]; other site 1196325001413 G-X-G motif; other site 1196325001414 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196325001415 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 1196325001416 active site 1196325001417 phosphorylation site [posttranslational modification] 1196325001418 intermolecular recognition site; other site 1196325001419 dimerization interface [polypeptide binding]; other site 1196325001420 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 1196325001421 DNA binding site [nucleotide binding] 1196325001422 GAD-like domain; Region: GAD-like; pfam08887 1196325001423 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 1196325001424 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1196325001425 metal-binding site 1196325001426 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1196325001427 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1196325001428 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1196325001429 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1196325001430 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1196325001431 Cytochrome c; Region: Cytochrom_C; pfam00034 1196325001432 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1196325001433 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 1196325001434 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1196325001435 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1196325001436 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1196325001437 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1196325001438 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1196325001439 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 1196325001440 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 1196325001441 Lumazine binding domain; Region: Lum_binding; pfam00677 1196325001442 Lumazine binding domain; Region: Lum_binding; pfam00677 1196325001443 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 1196325001444 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 1196325001445 proline/glycine betaine transporter; Provisional; Region: PRK10642 1196325001446 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 1196325001447 putative substrate translocation pore; other site 1196325001448 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 1196325001449 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; cd00384 1196325001450 dimer interface [polypeptide binding]; other site 1196325001451 active site 1196325001452 Schiff base residues; other site 1196325001453 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 1196325001454 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 1196325001455 ATP binding site [chemical binding]; other site 1196325001456 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1196325001457 Spore germination protein; Region: Spore_permease; cl17796 1196325001458 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1196325001459 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1196325001460 carbon starvation induced protein; Validated; Region: PRK02963 1196325001461 substrate binding pocket [chemical binding]; other site 1196325001462 active site 1196325001463 iron coordination sites [ion binding]; other site 1196325001464 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 1196325001465 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325001466 DNA-binding site [nucleotide binding]; DNA binding site 1196325001467 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1196325001468 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196325001469 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 1196325001470 active site 1196325001471 phosphorylation site [posttranslational modification] 1196325001472 intermolecular recognition site; other site 1196325001473 dimerization interface [polypeptide binding]; other site 1196325001474 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 1196325001475 DNA binding site [nucleotide binding] 1196325001476 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325001477 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 1196325001478 dimerization interface [polypeptide binding]; other site 1196325001479 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 1196325001480 dimer interface [polypeptide binding]; other site 1196325001481 phosphorylation site [posttranslational modification] 1196325001482 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 1196325001483 ATP binding site [chemical binding]; other site 1196325001484 Mg2+ binding site [ion binding]; other site 1196325001485 G-X-G motif; other site 1196325001486 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 1196325001487 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1196325001488 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 1196325001489 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1196325001490 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1196325001491 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1196325001492 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325001493 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1196325001494 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 1196325001495 DNA binding site [nucleotide binding] 1196325001496 active site 1196325001497 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1196325001498 endonuclease III; Region: ENDO3c; smart00478 1196325001499 minor groove reading motif; other site 1196325001500 helix-hairpin-helix signature motif; other site 1196325001501 substrate binding pocket [chemical binding]; other site 1196325001502 active site 1196325001503 RNA polymerase sigma factor; Provisional; Region: PRK12528 1196325001504 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325001505 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 1196325001506 DNA binding residues [nucleotide binding] 1196325001507 fec operon regulator FecR; Reviewed; Region: PRK09774 1196325001508 FecR protein; Region: FecR; pfam04773 1196325001509 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 1196325001510 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196325001511 putative substrate translocation pore; other site 1196325001512 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 1196325001513 putative substrate translocation pore; other site 1196325001514 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196325001515 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 1196325001516 nucleotide binding site [chemical binding]; other site 1196325001517 domain II; other site 1196325001518 domain IV; other site 1196325001519 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1196325001520 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1196325001521 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1196325001522 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1196325001523 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 1196325001524 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1196325001525 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1196325001526 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1196325001527 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1196325001528 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1196325001529 dimerization interface 3.5A [polypeptide binding]; other site 1196325001530 active site 1196325001531 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 1196325001532 active site 1196325001533 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1196325001534 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1196325001535 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1196325001536 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1196325001537 Sporulation related domain; Region: SPOR; pfam05036 1196325001538 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1196325001539 Colicin V production protein; Region: Colicin_V; cl00567 1196325001540 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1196325001541 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 1196325001542 active site 1196325001543 tetramer interface [polypeptide binding]; other site 1196325001544 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196325001545 active site 1196325001546 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 1196325001547 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 1196325001548 homodimer interface [polypeptide binding]; other site 1196325001549 substrate-cofactor binding pocket; other site 1196325001550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325001551 catalytic residue [active] 1196325001552 oxidoreductase; Validated; Region: PRK05717 1196325001553 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325001554 NAD(P) binding site [chemical binding]; other site 1196325001555 active site 1196325001556 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1196325001557 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1196325001558 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1196325001559 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1196325001560 active site 1196325001561 metal binding site [ion binding]; metal-binding site 1196325001562 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 1196325001563 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 1196325001564 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1196325001565 putative active site [active] 1196325001566 metal binding site [ion binding]; metal-binding site 1196325001567 helicase 45; Provisional; Region: PTZ00424 1196325001568 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 1196325001569 ATP binding site [chemical binding]; other site 1196325001570 Mg++ binding site [ion binding]; other site 1196325001571 motif III; other site 1196325001572 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 1196325001573 nucleotide binding region [chemical binding]; other site 1196325001574 ATP-binding site [chemical binding]; other site 1196325001575 DbpA RNA binding domain; Region: DbpA; pfam03880 1196325001576 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 1196325001577 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1196325001578 Integrase core domain; Region: rve_3; pfam13683 1196325001579 PAS fold; Region: PAS_3; pfam08447 1196325001580 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 1196325001581 putative active site [active] 1196325001582 heme pocket [chemical binding]; other site 1196325001583 PAS domain S-box; Region: sensory_box; TIGR00229 1196325001584 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 1196325001585 putative active site [active] 1196325001586 PAS fold; Region: PAS_3; pfam08447 1196325001587 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1196325001588 PAS domain S-box; Region: sensory_box; TIGR00229 1196325001589 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 1196325001590 putative active site [active] 1196325001591 heme pocket [chemical binding]; other site 1196325001592 PAS domain S-box; Region: sensory_box; TIGR00229 1196325001593 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 1196325001594 putative active site [active] 1196325001595 heme pocket [chemical binding]; other site 1196325001596 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325001597 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325001598 metal binding site [ion binding]; metal-binding site 1196325001599 active site 1196325001600 I-site; other site 1196325001601 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 1196325001602 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325001603 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325001604 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 1196325001605 dimerization interface [polypeptide binding]; other site 1196325001606 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1196325001607 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1196325001608 substrate binding site [chemical binding]; other site 1196325001609 ligand binding site [chemical binding]; other site 1196325001610 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1196325001611 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 1196325001612 substrate binding site [chemical binding]; other site 1196325001613 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 1196325001614 S-adenosylmethionine binding site [chemical binding]; other site 1196325001615 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1196325001616 tartrate dehydrogenase; Region: TTC; TIGR02089 1196325001617 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1196325001618 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1196325001619 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1196325001620 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1196325001621 sulfur relay protein TusC; Validated; Region: PRK00211 1196325001622 sulfur relay protein TusB/DsrH; Region: sulf_tusB_dsrH; TIGR03011 1196325001623 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1196325001624 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1196325001625 hypothetical protein; Validated; Region: PRK09071 1196325001626 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1196325001627 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1196325001628 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1196325001629 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1196325001630 putative dimer interface [polypeptide binding]; other site 1196325001631 N-terminal domain interface [polypeptide binding]; other site 1196325001632 putative substrate binding pocket (H-site) [chemical binding]; other site 1196325001633 siroheme synthase; Provisional; Region: cysG; PRK10637 1196325001634 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1196325001635 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1196325001636 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1196325001637 active site 1196325001638 SAM binding site [chemical binding]; other site 1196325001639 homodimer interface [polypeptide binding]; other site 1196325001640 seryl-tRNA synthetase; Provisional; Region: PRK05431 1196325001641 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1196325001642 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 1196325001643 dimer interface [polypeptide binding]; other site 1196325001644 active site 1196325001645 motif 1; other site 1196325001646 motif 2; other site 1196325001647 motif 3; other site 1196325001648 camphor resistance protein CrcB; Provisional; Region: PRK14234 1196325001649 recombination factor protein RarA; Reviewed; Region: PRK13342 1196325001650 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 1196325001651 Walker A motif; other site 1196325001652 ATP binding site [chemical binding]; other site 1196325001653 Walker B motif; other site 1196325001654 arginine finger; other site 1196325001655 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1196325001656 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1196325001657 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1196325001658 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1196325001659 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1196325001660 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1196325001661 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1196325001662 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1196325001663 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1196325001664 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1196325001665 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1196325001666 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 1196325001667 rRNA binding site [nucleotide binding]; other site 1196325001668 predicted 30S ribosome binding site; other site 1196325001669 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1196325001670 Clp amino terminal domain; Region: Clp_N; pfam02861 1196325001671 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 1196325001672 Walker A motif; other site 1196325001673 ATP binding site [chemical binding]; other site 1196325001674 Walker B motif; other site 1196325001675 arginine finger; other site 1196325001676 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 1196325001677 Walker A motif; other site 1196325001678 ATP binding site [chemical binding]; other site 1196325001679 Walker B motif; other site 1196325001680 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1196325001681 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1196325001682 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 1196325001683 DNA-binding site [nucleotide binding]; DNA binding site 1196325001684 RNA-binding motif; other site 1196325001685 isocitrate dehydrogenase; Validated; Region: PRK07362 1196325001686 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1196325001687 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1196325001688 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1196325001689 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 1196325001690 nudix motif; other site 1196325001691 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1196325001692 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 1196325001693 putative lysogenization regulator; Reviewed; Region: PRK00218 1196325001694 adenylosuccinate lyase; Provisional; Region: PRK09285 1196325001695 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1196325001696 tetramer interface [polypeptide binding]; other site 1196325001697 active site 1196325001698 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1196325001699 Cupin domain; Region: Cupin_2; cl17218 1196325001700 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325001701 Coenzyme A binding pocket [chemical binding]; other site 1196325001702 DNA topoisomerase III; Provisional; Region: PRK07726 1196325001703 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 1196325001704 active site 1196325001705 putative interdomain interaction site [polypeptide binding]; other site 1196325001706 putative metal-binding site [ion binding]; other site 1196325001707 putative nucleotide binding site [chemical binding]; other site 1196325001708 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; cl11986 1196325001709 domain I; other site 1196325001710 DNA binding groove [nucleotide binding] 1196325001711 phosphate binding site [ion binding]; other site 1196325001712 domain II; other site 1196325001713 domain III; other site 1196325001714 nucleotide binding site [chemical binding]; other site 1196325001715 catalytic site [active] 1196325001716 enoyl-CoA hydratase; Provisional; Region: PRK05862 1196325001717 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 1196325001718 substrate binding site [chemical binding]; other site 1196325001719 oxyanion hole (OAH) forming residues; other site 1196325001720 trimer interface [polypeptide binding]; other site 1196325001721 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196325001722 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 1196325001723 FAD binding site [chemical binding]; other site 1196325001724 homotetramer interface [polypeptide binding]; other site 1196325001725 substrate binding pocket [chemical binding]; other site 1196325001726 catalytic base [active] 1196325001727 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1196325001728 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 1196325001729 dimer interface [polypeptide binding]; other site 1196325001730 active site 1196325001731 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1196325001732 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325001733 NAD(P) binding site [chemical binding]; other site 1196325001734 active site 1196325001735 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1196325001736 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1196325001737 acyl-activating enzyme (AAE) consensus motif; other site 1196325001738 AMP binding site [chemical binding]; other site 1196325001739 active site 1196325001740 CoA binding site [chemical binding]; other site 1196325001741 Leucine rich repeat; Region: LRR_8; pfam13855 1196325001742 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1196325001743 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196325001744 SurA N-terminal domain; Region: SurA_N; pfam09312 1196325001745 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325001746 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325001747 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1196325001748 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 1196325001749 dimerization interface [polypeptide binding]; other site 1196325001750 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 1196325001751 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196325001752 catalytic residue [active] 1196325001753 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 1196325001754 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 1196325001755 motif II; other site 1196325001756 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1196325001757 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 1196325001758 ATP binding site [chemical binding]; other site 1196325001759 Mg++ binding site [ion binding]; other site 1196325001760 motif III; other site 1196325001761 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 1196325001762 nucleotide binding region [chemical binding]; other site 1196325001763 ATP-binding site [chemical binding]; other site 1196325001764 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1196325001765 putative hydrolase; Provisional; Region: PRK11460 1196325001766 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 1196325001767 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1196325001768 substrate binding pocket [chemical binding]; other site 1196325001769 membrane-bound complex binding site; other site 1196325001770 hinge residues; other site 1196325001771 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1196325001772 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 1196325001773 conserved gate region; other site 1196325001774 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 1196325001775 dimer interface [polypeptide binding]; other site 1196325001776 ABC-ATPase subunit interface; other site 1196325001777 putative PBP binding loops; other site 1196325001778 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1196325001779 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 1196325001780 dimer interface [polypeptide binding]; other site 1196325001781 conserved gate region; other site 1196325001782 putative PBP binding loops; other site 1196325001783 ABC-ATPase subunit interface; other site 1196325001784 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1196325001785 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1196325001786 Walker A/P-loop; other site 1196325001787 ATP binding site [chemical binding]; other site 1196325001788 Q-loop/lid; other site 1196325001789 ABC transporter signature motif; other site 1196325001790 Walker B; other site 1196325001791 D-loop; other site 1196325001792 H-loop/switch region; other site 1196325001793 serine endoprotease; Provisional; Region: PRK10898 1196325001794 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1196325001795 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 1196325001796 protein binding site [polypeptide binding]; other site 1196325001797 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1196325001798 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1196325001799 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1196325001800 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 1196325001801 Active Sites [active] 1196325001802 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1196325001803 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1196325001804 CysD dimerization site [polypeptide binding]; other site 1196325001805 G1 box; other site 1196325001806 putative GEF interaction site [polypeptide binding]; other site 1196325001807 GTP/Mg2+ binding site [chemical binding]; other site 1196325001808 Switch I region; other site 1196325001809 G2 box; other site 1196325001810 G3 box; other site 1196325001811 Switch II region; other site 1196325001812 G4 box; other site 1196325001813 G5 box; other site 1196325001814 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 1196325001815 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 1196325001816 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 1196325001817 ligand-binding site [chemical binding]; other site 1196325001818 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196325001819 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 1196325001820 putative DNA binding site [nucleotide binding]; other site 1196325001821 putative Zn2+ binding site [ion binding]; other site 1196325001822 AsnC family; Region: AsnC_trans_reg; pfam01037 1196325001823 methionine gamma-lyase; Provisional; Region: PRK07503 1196325001824 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 1196325001825 homodimer interface [polypeptide binding]; other site 1196325001826 substrate-cofactor binding pocket; other site 1196325001827 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325001828 catalytic residue [active] 1196325001829 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1196325001830 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1196325001831 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1196325001832 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1196325001833 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1196325001834 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1196325001835 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1196325001836 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1196325001837 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1196325001838 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1196325001839 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1196325001840 ligand binding site [chemical binding]; other site 1196325001841 homodimer interface [polypeptide binding]; other site 1196325001842 NAD(P) binding site [chemical binding]; other site 1196325001843 trimer interface B [polypeptide binding]; other site 1196325001844 trimer interface A [polypeptide binding]; other site 1196325001845 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1196325001846 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325001847 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 1196325001848 dimerization interface [polypeptide binding]; other site 1196325001849 substrate binding pocket [chemical binding]; other site 1196325001850 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1196325001851 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196325001852 FAD binding site [chemical binding]; other site 1196325001853 substrate binding pocket [chemical binding]; other site 1196325001854 catalytic base [active] 1196325001855 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1196325001856 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1196325001857 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1196325001858 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 1196325001859 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 1196325001860 active site 1196325001861 dimer interface [polypeptide binding]; other site 1196325001862 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 1196325001863 CPxP motif; other site 1196325001864 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 1196325001865 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1196325001866 ligand binding site [chemical binding]; other site 1196325001867 NAD binding site [chemical binding]; other site 1196325001868 catalytic site [active] 1196325001869 homodimer interface [polypeptide binding]; other site 1196325001870 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1196325001871 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1196325001872 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325001873 Walker A/P-loop; other site 1196325001874 ATP binding site [chemical binding]; other site 1196325001875 Q-loop/lid; other site 1196325001876 ABC transporter signature motif; other site 1196325001877 Walker B; other site 1196325001878 D-loop; other site 1196325001879 H-loop/switch region; other site 1196325001880 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1196325001881 dimerization interface [polypeptide binding]; other site 1196325001882 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325001883 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325001884 dimer interface [polypeptide binding]; other site 1196325001885 putative CheW interface [polypeptide binding]; other site 1196325001886 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1196325001887 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 1196325001888 MPT binding site; other site 1196325001889 trimer interface [polypeptide binding]; other site 1196325001890 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1196325001891 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 1196325001892 dimer interface [polypeptide binding]; other site 1196325001893 putative functional site; other site 1196325001894 putative MPT binding site; other site 1196325001895 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196325001896 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 1196325001897 lipid kinase; Reviewed; Region: PRK13054 1196325001898 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1196325001899 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196325001900 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 1196325001901 active site 1196325001902 phosphorylation site [posttranslational modification] 1196325001903 intermolecular recognition site; other site 1196325001904 dimerization interface [polypeptide binding]; other site 1196325001905 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 1196325001906 DNA binding residues [nucleotide binding] 1196325001907 dimerization interface [polypeptide binding]; other site 1196325001908 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1196325001909 Histidine kinase; Region: HisKA_3; pfam07730 1196325001910 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 1196325001911 ATP binding site [chemical binding]; other site 1196325001912 Mg2+ binding site [ion binding]; other site 1196325001913 G-X-G motif; other site 1196325001914 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1196325001915 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196325001916 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 1196325001917 active site 1196325001918 phosphorylation site [posttranslational modification] 1196325001919 intermolecular recognition site; other site 1196325001920 dimerization interface [polypeptide binding]; other site 1196325001921 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1196325001922 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1196325001923 MOSC domain; Region: MOSC; pfam03473 1196325001924 lytic murein transglycosylase; Provisional; Region: PRK11619 1196325001925 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 1196325001926 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1196325001927 catalytic residue [active] 1196325001928 ABC transporter ATPase component; Reviewed; Region: PRK11147 1196325001929 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196325001930 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196325001931 ABC transporter; Region: ABC_tran_2; pfam12848 1196325001932 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196325001933 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 1196325001934 Ligand Binding Site [chemical binding]; other site 1196325001935 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1196325001936 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 1196325001937 substrate binding site [chemical binding]; other site 1196325001938 oxyanion hole (OAH) forming residues; other site 1196325001939 trimer interface [polypeptide binding]; other site 1196325001940 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1196325001941 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196325001942 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1196325001943 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 1196325001944 dimer interface [polypeptide binding]; other site 1196325001945 active site 1196325001946 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1196325001947 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 1196325001948 active site 1196325001949 interdomain interaction site; other site 1196325001950 putative metal-binding site [ion binding]; other site 1196325001951 nucleotide binding site [chemical binding]; other site 1196325001952 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; cl11986 1196325001953 domain I; other site 1196325001954 DNA binding groove [nucleotide binding] 1196325001955 phosphate binding site [ion binding]; other site 1196325001956 domain III; other site 1196325001957 catalytic site [active] 1196325001958 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1196325001959 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1196325001960 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196325001961 ligand binding site [chemical binding]; other site 1196325001962 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1196325001963 flagellar motor protein MotA; Validated; Region: PRK09110 1196325001964 HDOD domain; Region: HDOD; pfam08668 1196325001965 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1196325001966 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 1196325001967 active site residue [active] 1196325001968 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 1196325001969 active site residue [active] 1196325001970 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1196325001971 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1196325001972 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 1196325001973 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 1196325001974 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1196325001975 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 1196325001976 motif II; other site 1196325001977 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 1196325001978 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 1196325001979 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196325001980 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1196325001981 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1196325001982 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1196325001983 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1196325001984 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 1196325001985 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1196325001986 metal binding site [ion binding]; metal-binding site 1196325001987 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325001988 Walker A/P-loop; other site 1196325001989 ATP binding site [chemical binding]; other site 1196325001990 Q-loop/lid; other site 1196325001991 poly(A) polymerase; Region: pcnB; TIGR01942 1196325001992 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1196325001993 active site 1196325001994 NTP binding site [chemical binding]; other site 1196325001995 metal binding triad [ion binding]; metal-binding site 1196325001996 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1196325001997 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1196325001998 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 1196325001999 catalytic center binding site [active] 1196325002000 ATP binding site [chemical binding]; other site 1196325002001 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 1196325002002 oligomerization interface [polypeptide binding]; other site 1196325002003 active site 1196325002004 metal binding site [ion binding]; metal-binding site 1196325002005 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1196325002006 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1196325002007 active site 1196325002008 ATP-binding site [chemical binding]; other site 1196325002009 pantoate-binding site; other site 1196325002010 HXXH motif; other site 1196325002011 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1196325002012 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 1196325002013 active site 1196325002014 dimer interface [polypeptide binding]; other site 1196325002015 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 1196325002016 dimer interface [polypeptide binding]; other site 1196325002017 active site 1196325002018 acetyl-CoA synthetase; Provisional; Region: PRK00174 1196325002019 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1196325002020 active site 1196325002021 CoA binding site [chemical binding]; other site 1196325002022 acyl-activating enzyme (AAE) consensus motif; other site 1196325002023 AMP binding site [chemical binding]; other site 1196325002024 acetate binding site [chemical binding]; other site 1196325002025 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 1196325002026 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1196325002027 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1196325002028 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1196325002029 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1196325002030 ligand binding site [chemical binding]; other site 1196325002031 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 1196325002032 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196325002033 active site 1196325002034 metal binding site [ion binding]; metal-binding site 1196325002035 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1196325002036 BON domain; Region: BON; pfam04972 1196325002037 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1196325002038 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1196325002039 RNase E interface [polypeptide binding]; other site 1196325002040 trimer interface [polypeptide binding]; other site 1196325002041 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1196325002042 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1196325002043 RNase E interface [polypeptide binding]; other site 1196325002044 trimer interface [polypeptide binding]; other site 1196325002045 active site 1196325002046 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 1196325002047 putative nucleic acid binding region [nucleotide binding]; other site 1196325002048 G-X-X-G motif; other site 1196325002049 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 1196325002050 RNA binding site [nucleotide binding]; other site 1196325002051 domain interface; other site 1196325002052 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 1196325002053 16S/18S rRNA binding site [nucleotide binding]; other site 1196325002054 S13e-L30e interaction site [polypeptide binding]; other site 1196325002055 25S rRNA binding site [nucleotide binding]; other site 1196325002056 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1196325002057 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1196325002058 RNA binding site [nucleotide binding]; other site 1196325002059 active site 1196325002060 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1196325002061 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1196325002062 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1196325002063 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1196325002064 translation initiation factor IF-2; Region: IF-2; TIGR00487 1196325002065 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1196325002066 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1196325002067 G1 box; other site 1196325002068 putative GEF interaction site [polypeptide binding]; other site 1196325002069 GTP/Mg2+ binding site [chemical binding]; other site 1196325002070 Switch I region; other site 1196325002071 G2 box; other site 1196325002072 G3 box; other site 1196325002073 Switch II region; other site 1196325002074 G4 box; other site 1196325002075 G5 box; other site 1196325002076 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 1196325002077 Translation-initiation factor 2; Region: IF-2; pfam11987 1196325002078 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 1196325002079 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1196325002080 NusA N-terminal domain; Region: NusA_N; pfam08529 1196325002081 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 1196325002082 RNA binding site [nucleotide binding]; other site 1196325002083 homodimer interface [polypeptide binding]; other site 1196325002084 NusA-like KH domain; Region: KH_5; pfam13184 1196325002085 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 1196325002086 G-X-X-G motif; other site 1196325002087 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1196325002088 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1196325002089 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1196325002090 Sm and related proteins; Region: Sm_like; cl00259 1196325002091 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1196325002092 putative oligomer interface [polypeptide binding]; other site 1196325002093 putative RNA binding site [nucleotide binding]; other site 1196325002094 triosephosphate isomerase; Provisional; Region: PRK14567 1196325002095 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 1196325002096 substrate binding site [chemical binding]; other site 1196325002097 dimer interface [polypeptide binding]; other site 1196325002098 catalytic triad [active] 1196325002099 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1196325002100 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 1196325002101 active site 1196325002102 substrate binding site [chemical binding]; other site 1196325002103 metal binding site [ion binding]; metal-binding site 1196325002104 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 1196325002105 dihydropteroate synthase; Region: DHPS; TIGR01496 1196325002106 substrate binding pocket [chemical binding]; other site 1196325002107 dimer interface [polypeptide binding]; other site 1196325002108 inhibitor binding site; inhibition site 1196325002109 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1196325002110 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 1196325002111 Walker A motif; other site 1196325002112 ATP binding site [chemical binding]; other site 1196325002113 Walker B motif; other site 1196325002114 arginine finger; other site 1196325002115 Peptidase family M41; Region: Peptidase_M41; pfam01434 1196325002116 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1196325002117 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 1196325002118 S-adenosylmethionine binding site [chemical binding]; other site 1196325002119 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 1196325002120 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1196325002121 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1196325002122 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1196325002123 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1196325002124 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1196325002125 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1196325002126 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1196325002127 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1196325002128 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1196325002129 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 1196325002130 IMP binding site; other site 1196325002131 dimer interface [polypeptide binding]; other site 1196325002132 interdomain contacts; other site 1196325002133 partial ornithine binding site; other site 1196325002134 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1196325002135 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1196325002136 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1196325002137 catalytic site [active] 1196325002138 subunit interface [polypeptide binding]; other site 1196325002139 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1196325002140 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1196325002141 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1196325002142 chaperone protein DnaJ; Provisional; Region: PRK10767 1196325002143 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 1196325002144 HSP70 interaction site [polypeptide binding]; other site 1196325002145 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1196325002146 substrate binding site [polypeptide binding]; other site 1196325002147 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1196325002148 Zn binding sites [ion binding]; other site 1196325002149 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1196325002150 dimer interface [polypeptide binding]; other site 1196325002151 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1196325002152 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1196325002153 nucleotide binding site [chemical binding]; other site 1196325002154 NEF interaction site [polypeptide binding]; other site 1196325002155 SBD interface [polypeptide binding]; other site 1196325002156 GrpE; Region: GrpE; pfam01025 1196325002157 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 1196325002158 dimer interface [polypeptide binding]; other site 1196325002159 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1196325002160 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1196325002161 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1196325002162 Walker A/P-loop; other site 1196325002163 ATP binding site [chemical binding]; other site 1196325002164 Q-loop/lid; other site 1196325002165 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1196325002166 ABC transporter signature motif; other site 1196325002167 Walker B; other site 1196325002168 D-loop; other site 1196325002169 H-loop/switch region; other site 1196325002170 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1196325002171 metal binding site 2 [ion binding]; metal-binding site 1196325002172 putative DNA binding helix; other site 1196325002173 metal binding site 1 [ion binding]; metal-binding site 1196325002174 dimer interface [polypeptide binding]; other site 1196325002175 structural Zn2+ binding site [ion binding]; other site 1196325002176 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1196325002177 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1196325002178 putative coenzyme Q binding site [chemical binding]; other site 1196325002179 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 1196325002180 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1196325002181 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325002182 DNA-binding site [nucleotide binding]; DNA binding site 1196325002183 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1196325002184 glycolate transporter; Provisional; Region: PRK09695 1196325002185 L-lactate permease; Region: Lactate_perm; cl00701 1196325002186 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1196325002187 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 1196325002188 phosphate binding site [ion binding]; other site 1196325002189 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1196325002190 FAD binding domain; Region: FAD_binding_4; pfam01565 1196325002191 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 1196325002192 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1196325002193 integrase; Provisional; Region: PRK09692 1196325002194 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1196325002195 active site 1196325002196 Int/Topo IB signature motif; other site 1196325002197 Integrase; Region: Integrase_1; pfam12835 1196325002198 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 1196325002199 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325002200 Walker A/P-loop; other site 1196325002201 ATP binding site [chemical binding]; other site 1196325002202 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325002203 Q-loop/lid; other site 1196325002204 ABC transporter signature motif; other site 1196325002205 Walker B; other site 1196325002206 D-loop; other site 1196325002207 H-loop/switch region; other site 1196325002208 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1196325002209 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1196325002210 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1196325002211 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1196325002212 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1196325002213 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1196325002214 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 1196325002215 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 1196325002216 ATP binding site [chemical binding]; other site 1196325002217 putative Mg++ binding site [ion binding]; other site 1196325002218 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1196325002219 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1196325002220 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1196325002221 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1196325002222 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1196325002223 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1196325002224 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1196325002225 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1196325002226 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1196325002227 WYL domain; Region: WYL; pfam13280 1196325002228 Secretin and TonB N terminus short domain; Region: STN; smart00965 1196325002229 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 1196325002230 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 1196325002231 N-terminal plug; other site 1196325002232 ligand-binding site [chemical binding]; other site 1196325002233 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 1196325002234 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1196325002235 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1196325002236 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 1196325002237 active site 1196325002238 tetramer interface [polypeptide binding]; other site 1196325002239 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 1196325002240 D-galactonate transporter; Region: 2A0114; TIGR00893 1196325002241 putative substrate translocation pore; other site 1196325002242 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1196325002243 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325002244 DNA-binding site [nucleotide binding]; DNA binding site 1196325002245 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1196325002246 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1196325002247 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1196325002248 putative NAD(P) binding site [chemical binding]; other site 1196325002249 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1196325002250 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 1196325002251 active site 1196325002252 motif I; other site 1196325002253 motif II; other site 1196325002254 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1196325002255 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1196325002256 active site 1196325002257 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1196325002258 catalytic triad [active] 1196325002259 dimer interface [polypeptide binding]; other site 1196325002260 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1196325002261 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1196325002262 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 1196325002263 catalytic core [active] 1196325002264 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 1196325002265 ParA-like protein; Provisional; Region: PHA02518 1196325002266 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 1196325002267 P-loop; other site 1196325002268 Magnesium ion binding site [ion binding]; other site 1196325002269 Replication initiator protein A; Region: RPA; pfam10134 1196325002270 Helix-turn-helix domain; Region: HTH_17; cl17695 1196325002271 Uncharacterized conserved protein [Function unknown]; Region: COG5419 1196325002272 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 1196325002273 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; pfam10137 1196325002274 Uncharacterized conserved protein [Function unknown]; Region: COG5489 1196325002275 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1196325002276 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1196325002277 Walker A/P-loop; other site 1196325002278 ATP binding site [chemical binding]; other site 1196325002279 Q-loop/lid; other site 1196325002280 ABC transporter signature motif; other site 1196325002281 Walker B; other site 1196325002282 D-loop; other site 1196325002283 H-loop/switch region; other site 1196325002284 peptide synthase; Validated; Region: PRK05691 1196325002285 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1196325002286 acyl-activating enzyme (AAE) consensus motif; other site 1196325002287 active site 1196325002288 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1196325002289 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1196325002290 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1196325002291 acyl-activating enzyme (AAE) consensus motif; other site 1196325002292 AMP binding site [chemical binding]; other site 1196325002293 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1196325002294 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1196325002295 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1196325002296 acyl-activating enzyme (AAE) consensus motif; other site 1196325002297 AMP binding site [chemical binding]; other site 1196325002298 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1196325002299 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1196325002300 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1196325002301 acyl-activating enzyme (AAE) consensus motif; other site 1196325002302 AMP binding site [chemical binding]; other site 1196325002303 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1196325002304 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 1196325002305 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325002306 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 1196325002307 DNA binding residues [nucleotide binding] 1196325002308 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1196325002309 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 1196325002310 substrate binding pocket [chemical binding]; other site 1196325002311 membrane-bound complex binding site; other site 1196325002312 hinge residues; other site 1196325002313 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 1196325002314 active site 1196325002315 catalytic site [active] 1196325002316 substrate binding site [chemical binding]; other site 1196325002317 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 1196325002318 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1196325002319 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 1196325002320 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 1196325002321 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1196325002322 Low-spin heme binding site [chemical binding]; other site 1196325002323 Putative water exit pathway; other site 1196325002324 Binuclear center (active site) [active] 1196325002325 Putative proton exit pathway; other site 1196325002326 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1196325002327 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1196325002328 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 1196325002329 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1196325002330 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1196325002331 Cytochrome c; Region: Cytochrom_C; pfam00034 1196325002332 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 1196325002333 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1196325002334 Low-spin heme binding site [chemical binding]; other site 1196325002335 Putative water exit pathway; other site 1196325002336 Binuclear center (active site) [active] 1196325002337 Putative proton exit pathway; other site 1196325002338 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1196325002339 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1196325002340 Cytochrome cbb oxidase CcoQ. 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 of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 1196325002341 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1196325002342 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1196325002343 Cytochrome c; Region: Cytochrom_C; pfam00034 1196325002344 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1196325002345 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1196325002346 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1196325002347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1196325002348 FixH; Region: FixH; pfam05751 1196325002349 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1196325002350 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1196325002351 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 1196325002352 metal-binding site [ion binding] 1196325002353 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1196325002354 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1196325002355 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1196325002356 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1196325002357 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1196325002358 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 1196325002359 FeS/SAM binding site; other site 1196325002360 HemN C-terminal domain; Region: HemN_C; pfam06969 1196325002361 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1196325002362 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 1196325002363 ligand binding site [chemical binding]; other site 1196325002364 flexible hinge region; other site 1196325002365 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 1196325002366 putative switch regulator; other site 1196325002367 non-specific DNA interactions [nucleotide binding]; other site 1196325002368 DNA binding site [nucleotide binding] 1196325002369 sequence specific DNA binding site [nucleotide binding]; other site 1196325002370 putative cAMP binding site [chemical binding]; other site 1196325002371 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196325002372 active site 1196325002373 recombination protein RecR; Reviewed; Region: recR; PRK00076 1196325002374 RecR protein; Region: RecR; pfam02132 1196325002375 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 1196325002376 putative active site [active] 1196325002377 putative metal-binding site [ion binding]; other site 1196325002378 tetramer interface [polypeptide binding]; other site 1196325002379 hypothetical protein; Validated; Region: PRK00153 1196325002380 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 1196325002381 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 1196325002382 Walker A motif; other site 1196325002383 ATP binding site [chemical binding]; other site 1196325002384 Walker B motif; other site 1196325002385 arginine finger; other site 1196325002386 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1196325002387 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325002388 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 1196325002389 substrate binding pocket [chemical binding]; other site 1196325002390 membrane-bound complex binding site; other site 1196325002391 hinge residues; other site 1196325002392 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1196325002393 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 1196325002394 DNA binding residues [nucleotide binding] 1196325002395 putative dimer interface [polypeptide binding]; other site 1196325002396 putative metal binding residues [ion binding]; other site 1196325002397 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1196325002398 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 1196325002399 nucleotide binding pocket [chemical binding]; other site 1196325002400 K-X-D-G motif; other site 1196325002401 catalytic site [active] 1196325002402 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1196325002403 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1196325002404 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 1196325002405 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 1196325002406 Dimer interface [polypeptide binding]; other site 1196325002407 cell division protein ZipA; Reviewed; Region: zipA; PRK00269 1196325002408 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 1196325002409 FtsZ protein binding site [polypeptide binding]; other site 1196325002410 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1196325002411 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1196325002412 Walker A/P-loop; other site 1196325002413 ATP binding site [chemical binding]; other site 1196325002414 Q-loop/lid; other site 1196325002415 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1196325002416 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1196325002417 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1196325002418 ABC transporter signature motif; other site 1196325002419 Walker B; other site 1196325002420 D-loop; other site 1196325002421 H-loop/switch region; other site 1196325002422 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1196325002423 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325002424 DNA-binding site [nucleotide binding]; DNA binding site 1196325002425 FCD domain; Region: FCD; cl11656 1196325002426 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1196325002427 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 1196325002428 catalytic loop [active] 1196325002429 iron binding site [ion binding]; other site 1196325002430 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1196325002431 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1196325002432 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1196325002433 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1196325002434 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1196325002435 hypothetical protein; Provisional; Region: PRK10756 1196325002436 CreA protein; Region: CreA; pfam05981 1196325002437 gamma-glutamyl kinase; Provisional; Region: PRK05429 1196325002438 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 1196325002439 nucleotide binding site [chemical binding]; other site 1196325002440 homotetrameric interface [polypeptide binding]; other site 1196325002441 putative phosphate binding site [ion binding]; other site 1196325002442 putative allosteric binding site; other site 1196325002443 PUA domain; Region: PUA; pfam01472 1196325002444 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1196325002445 GTP1/OBG; Region: GTP1_OBG; pfam01018 1196325002446 Obg GTPase; Region: Obg; cd01898 1196325002447 G1 box; other site 1196325002448 GTP/Mg2+ binding site [chemical binding]; other site 1196325002449 Switch I region; other site 1196325002450 G2 box; other site 1196325002451 G3 box; other site 1196325002452 Switch II region; other site 1196325002453 G4 box; other site 1196325002454 G5 box; other site 1196325002455 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1196325002456 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1196325002457 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1196325002458 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1196325002459 substrate binding pocket [chemical binding]; other site 1196325002460 chain length determination region; other site 1196325002461 substrate-Mg2+ binding site; other site 1196325002462 catalytic residues [active] 1196325002463 aspartate-rich region 1; other site 1196325002464 active site lid residues [active] 1196325002465 aspartate-rich region 2; other site 1196325002466 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1196325002467 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1196325002468 PhnA protein; Region: PhnA; pfam03831 1196325002469 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1196325002470 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1196325002471 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1196325002472 hypothetical protein; Provisional; Region: PRK05208 1196325002473 AAA domain; Region: AAA_32; pfam13654 1196325002474 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 1196325002475 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1196325002476 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 1196325002477 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1196325002478 transcription elongation factor regulatory protein; Validated; Region: PRK06342 1196325002479 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1196325002480 glutamate dehydrogenase; Provisional; Region: PRK09414 1196325002481 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1196325002482 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1196325002483 NAD(P) binding site [chemical binding]; other site 1196325002484 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1196325002485 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325002486 Walker A/P-loop; other site 1196325002487 ATP binding site [chemical binding]; other site 1196325002488 Q-loop/lid; other site 1196325002489 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196325002490 ABC transporter signature motif; other site 1196325002491 Walker B; other site 1196325002492 D-loop; other site 1196325002493 ABC transporter; Region: ABC_tran_2; pfam12848 1196325002494 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196325002495 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 1196325002496 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 1196325002497 putative active site [active] 1196325002498 heme pocket [chemical binding]; other site 1196325002499 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 1196325002500 putative active site [active] 1196325002501 heme pocket [chemical binding]; other site 1196325002502 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 1196325002503 putative active site [active] 1196325002504 heme pocket [chemical binding]; other site 1196325002505 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325002506 metal binding site [ion binding]; metal-binding site 1196325002507 active site 1196325002508 I-site; other site 1196325002509 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 1196325002510 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1196325002511 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 1196325002512 dimer interface [polypeptide binding]; other site 1196325002513 active site 1196325002514 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1196325002515 folate binding site [chemical binding]; other site 1196325002516 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1196325002517 Sodium Bile acid symporter family; Region: SBF; cl17470 1196325002518 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 1196325002519 homotrimer interaction site [polypeptide binding]; other site 1196325002520 putative active site [active] 1196325002521 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1196325002522 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1196325002523 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1196325002524 NAD(P) binding site [chemical binding]; other site 1196325002525 catalytic residues [active] 1196325002526 homoserine dehydrogenase; Provisional; Region: PRK06270 1196325002527 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1196325002528 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196325002529 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1196325002530 AsnC family; Region: AsnC_trans_reg; pfam01037 1196325002531 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1196325002532 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 1196325002533 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325002534 catalytic residue [active] 1196325002535 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1196325002536 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325002537 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 1196325002538 dimerization interface [polypeptide binding]; other site 1196325002539 substrate binding pocket [chemical binding]; other site 1196325002540 S-methylmethionine transporter; Provisional; Region: PRK11387 1196325002541 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1196325002542 cystathionine gamma-synthase; Provisional; Region: PRK08249 1196325002543 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 1196325002544 homodimer interface [polypeptide binding]; other site 1196325002545 substrate-cofactor binding pocket; other site 1196325002546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325002547 catalytic residue [active] 1196325002548 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 1196325002549 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1196325002550 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325002551 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 1196325002552 substrate binding pocket [chemical binding]; other site 1196325002553 membrane-bound complex binding site; other site 1196325002554 hinge residues; other site 1196325002555 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1196325002556 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 1196325002557 dimer interface [polypeptide binding]; other site 1196325002558 conserved gate region; other site 1196325002559 putative PBP binding loops; other site 1196325002560 ABC-ATPase subunit interface; other site 1196325002561 Protein of unknown function (DUF796); Region: DUF796; cl01226 1196325002562 malate dehydrogenase; Reviewed; Region: PRK06223 1196325002563 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1196325002564 NAD(P) binding site [chemical binding]; other site 1196325002565 dimer interface [polypeptide binding]; other site 1196325002566 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1196325002567 substrate binding site [chemical binding]; other site 1196325002568 GntP family permease; Region: GntP_permease; pfam02447 1196325002569 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1196325002570 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1196325002571 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1196325002572 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1196325002573 PAAR motif; Region: PAAR_motif; pfam05488 1196325002574 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1196325002575 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1196325002576 Pilin (bacterial filament); Region: Pilin; pfam00114 1196325002577 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1196325002578 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1196325002579 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1196325002580 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 1196325002581 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1196325002582 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1196325002583 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1196325002584 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 1196325002585 CoA-binding site [chemical binding]; other site 1196325002586 ATP-binding [chemical binding]; other site 1196325002587 DNA gyrase inhibitor; Reviewed; Region: PRK00418 1196325002588 Predicted membrane protein [Function unknown]; Region: COG3235 1196325002589 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1196325002590 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 1196325002591 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 1196325002592 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1196325002593 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196325002594 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 1196325002595 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1196325002596 Walker A motif; other site 1196325002597 ATP binding site [chemical binding]; other site 1196325002598 Walker B motif; other site 1196325002599 arginine finger; other site 1196325002600 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1196325002601 Clp amino terminal domain; Region: Clp_N; pfam02861 1196325002602 Clp amino terminal domain; Region: Clp_N; pfam02861 1196325002603 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 1196325002604 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1196325002605 Walker A motif; other site 1196325002606 ATP binding site [chemical binding]; other site 1196325002607 Walker B motif; other site 1196325002608 arginine finger; other site 1196325002609 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1196325002610 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1196325002611 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1196325002612 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 1196325002613 RNA binding surface [nucleotide binding]; other site 1196325002614 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1196325002615 active site 1196325002616 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1196325002617 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1196325002618 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325002619 DNA-binding site [nucleotide binding]; DNA binding site 1196325002620 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1196325002621 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 1196325002622 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1196325002623 putative ligand binding site [chemical binding]; other site 1196325002624 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 1196325002625 TM-ABC transporter signature motif; other site 1196325002626 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1196325002627 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 1196325002628 TM-ABC transporter signature motif; other site 1196325002629 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1196325002630 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1196325002631 Walker A/P-loop; other site 1196325002632 ATP binding site [chemical binding]; other site 1196325002633 Q-loop/lid; other site 1196325002634 ABC transporter signature motif; other site 1196325002635 Walker B; other site 1196325002636 D-loop; other site 1196325002637 H-loop/switch region; other site 1196325002638 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1196325002639 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1196325002640 Walker A/P-loop; other site 1196325002641 ATP binding site [chemical binding]; other site 1196325002642 Q-loop/lid; other site 1196325002643 ABC transporter signature motif; other site 1196325002644 Walker B; other site 1196325002645 D-loop; other site 1196325002646 H-loop/switch region; other site 1196325002647 allantoate amidohydrolase; Reviewed; Region: PRK12893 1196325002648 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1196325002649 active site 1196325002650 metal binding site [ion binding]; metal-binding site 1196325002651 dimer interface [polypeptide binding]; other site 1196325002652 putative amidase; Provisional; Region: PRK06169 1196325002653 Amidase; Region: Amidase; pfam01425 1196325002654 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 1196325002655 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 1196325002656 P-loop, Walker A motif; other site 1196325002657 Base recognition motif; other site 1196325002658 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1196325002659 Protein of unknown function (DUF466); Region: DUF466; pfam04328 1196325002660 carbon starvation protein A; Provisional; Region: PRK15015 1196325002661 Carbon starvation protein CstA; Region: CstA; pfam02554 1196325002662 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1196325002663 xanthine permease; Region: pbuX; TIGR03173 1196325002664 DNA repair protein RadA; Provisional; Region: PRK11823 1196325002665 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 1196325002666 Walker A motif; other site 1196325002667 ATP binding site [chemical binding]; other site 1196325002668 Walker B motif; other site 1196325002669 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1196325002670 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1196325002671 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1196325002672 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 1196325002673 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1196325002674 FAD binding pocket [chemical binding]; other site 1196325002675 FAD binding motif [chemical binding]; other site 1196325002676 phosphate binding motif [ion binding]; other site 1196325002677 beta-alpha-beta structure motif; other site 1196325002678 NAD binding pocket [chemical binding]; other site 1196325002679 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1196325002680 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 1196325002681 DNA binding residues [nucleotide binding] 1196325002682 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1196325002683 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 1196325002684 S-adenosylmethionine binding site [chemical binding]; other site 1196325002685 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 1196325002686 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1196325002687 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1196325002688 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1196325002689 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1196325002690 H+ Antiporter protein; Region: 2A0121; TIGR00900 1196325002691 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 1196325002692 putative substrate translocation pore; other site 1196325002693 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1196325002694 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1196325002695 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 1196325002696 S-adenosylmethionine binding site [chemical binding]; other site 1196325002697 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1196325002698 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 1196325002699 heterodimer interface [polypeptide binding]; other site 1196325002700 active site 1196325002701 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 1196325002702 heterodimer interface [polypeptide binding]; other site 1196325002703 multimer interface [polypeptide binding]; other site 1196325002704 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1196325002705 active site 1196325002706 Predicted metalloprotease [General function prediction only]; Region: COG2321 1196325002707 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1196325002708 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 1196325002709 dimerization interface [polypeptide binding]; other site 1196325002710 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325002711 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325002712 dimer interface [polypeptide binding]; other site 1196325002713 putative CheW interface [polypeptide binding]; other site 1196325002714 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1196325002715 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1196325002716 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325002717 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325002718 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 1196325002719 dimerization interface [polypeptide binding]; other site 1196325002720 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1196325002721 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1196325002722 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325002723 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325002724 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 1196325002725 putative dimerization interface [polypeptide binding]; other site 1196325002726 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1196325002727 putative metal binding site [ion binding]; other site 1196325002728 putative homodimer interface [polypeptide binding]; other site 1196325002729 putative homotetramer interface [polypeptide binding]; other site 1196325002730 putative homodimer-homodimer interface [polypeptide binding]; other site 1196325002731 putative allosteric switch controlling residues; other site 1196325002732 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1196325002733 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1196325002734 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1196325002735 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1196325002736 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1196325002737 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1196325002738 tetrameric interface [polypeptide binding]; other site 1196325002739 NAD binding site [chemical binding]; other site 1196325002740 catalytic residues [active] 1196325002741 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325002742 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325002743 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 1196325002744 dimerization interface [polypeptide binding]; other site 1196325002745 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196325002746 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196325002747 ligand binding site [chemical binding]; other site 1196325002748 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 1196325002749 HAMP domain; Region: HAMP; pfam00672 1196325002750 dimerization interface [polypeptide binding]; other site 1196325002751 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325002752 metal binding site [ion binding]; metal-binding site 1196325002753 active site 1196325002754 I-site; other site 1196325002755 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 1196325002756 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 1196325002757 AAA domain; Region: AAA_30; pfam13604 1196325002758 Family description; Region: UvrD_C_2; pfam13538 1196325002759 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1196325002760 Family description; Region: UvrD_C_2; pfam13538 1196325002761 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 1196325002762 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1196325002763 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1196325002764 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1196325002765 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1196325002766 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1196325002767 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1196325002768 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 1196325002769 ATP binding site [chemical binding]; other site 1196325002770 putative Mg++ binding site [ion binding]; other site 1196325002771 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 1196325002772 nucleotide binding region [chemical binding]; other site 1196325002773 ATP-binding site [chemical binding]; other site 1196325002774 Helicase associated domain (HA2); Region: HA2; pfam04408 1196325002775 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1196325002776 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1196325002777 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 1196325002778 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 1196325002779 dimer interface [polypeptide binding]; other site 1196325002780 active site 1196325002781 CoA binding pocket [chemical binding]; other site 1196325002782 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1196325002783 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1196325002784 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1196325002785 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1196325002786 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1196325002787 Walker A/P-loop; other site 1196325002788 ATP binding site [chemical binding]; other site 1196325002789 Q-loop/lid; other site 1196325002790 ABC transporter signature motif; other site 1196325002791 Walker B; other site 1196325002792 D-loop; other site 1196325002793 H-loop/switch region; other site 1196325002794 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 1196325002795 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 1196325002796 substrate binding site [chemical binding]; other site 1196325002797 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1196325002798 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1196325002799 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325002800 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325002801 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1196325002802 dimerization interface [polypeptide binding]; other site 1196325002803 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 1196325002804 azoreductase; Reviewed; Region: PRK00170 1196325002805 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1196325002806 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1196325002807 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1196325002808 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1196325002809 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1196325002810 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1196325002811 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1196325002812 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1196325002813 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1196325002814 G1 box; other site 1196325002815 GTP/Mg2+ binding site [chemical binding]; other site 1196325002816 Switch I region; other site 1196325002817 G2 box; other site 1196325002818 Switch II region; other site 1196325002819 G3 box; other site 1196325002820 G4 box; other site 1196325002821 G5 box; other site 1196325002822 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1196325002823 membrane protein insertase; Provisional; Region: PRK01318 1196325002824 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1196325002825 ribonuclease P; Reviewed; Region: rnpA; PRK00396 1196325002826 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1196325002827 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1196325002828 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 1196325002829 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1196325002830 Walker A motif; other site 1196325002831 ATP binding site [chemical binding]; other site 1196325002832 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 1196325002833 Walker B motif; other site 1196325002834 arginine finger; other site 1196325002835 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 1196325002836 DnaA box-binding interface [nucleotide binding]; other site 1196325002837 DNA polymerase III subunit beta; Validated; Region: PRK05643 1196325002838 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 1196325002839 putative DNA binding surface [nucleotide binding]; other site 1196325002840 dimer interface [polypeptide binding]; other site 1196325002841 beta-clamp/clamp loader binding surface; other site 1196325002842 beta-clamp/translesion DNA polymerase binding surface; other site 1196325002843 recombination protein F; Reviewed; Region: recF; PRK00064 1196325002844 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325002845 Walker A/P-loop; other site 1196325002846 ATP binding site [chemical binding]; other site 1196325002847 Q-loop/lid; other site 1196325002848 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325002849 ABC transporter signature motif; other site 1196325002850 Walker B; other site 1196325002851 D-loop; other site 1196325002852 H-loop/switch region; other site 1196325002853 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1196325002854 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 1196325002855 Mg2+ binding site [ion binding]; other site 1196325002856 G-X-G motif; other site 1196325002857 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 1196325002858 anchoring element; other site 1196325002859 dimer interface [polypeptide binding]; other site 1196325002860 ATP binding site [chemical binding]; other site 1196325002861 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 1196325002862 active site 1196325002863 putative metal-binding site [ion binding]; other site 1196325002864 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1196325002865 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 1196325002866 PAS fold; Region: PAS_4; pfam08448 1196325002867 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 1196325002868 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1196325002869 Walker A motif; other site 1196325002870 ATP binding site [chemical binding]; other site 1196325002871 Walker B motif; other site 1196325002872 arginine finger; other site 1196325002873 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196325002874 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1196325002875 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1196325002876 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325002877 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325002878 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 1196325002879 dimerization interface [polypeptide binding]; other site 1196325002880 choline dehydrogenase; Validated; Region: PRK02106 1196325002881 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1196325002882 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 1196325002883 putative substrate translocation pore; other site 1196325002884 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1196325002885 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1196325002886 putative acyl-acceptor binding pocket; other site 1196325002887 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1196325002888 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 1196325002889 active site 1196325002890 motif I; other site 1196325002891 motif II; other site 1196325002892 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1196325002893 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1196325002894 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 1196325002895 dimer interface [polypeptide binding]; other site 1196325002896 motif 1; other site 1196325002897 active site 1196325002898 motif 2; other site 1196325002899 motif 3; other site 1196325002900 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1196325002901 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1196325002902 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1196325002903 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1196325002904 putative acyl-acceptor binding pocket; other site 1196325002905 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 1196325002906 TPR motif; other site 1196325002907 binding surface 1196325002908 K+ potassium transporter; Region: K_trans; cl15781 1196325002909 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1196325002910 TrkA-N domain; Region: TrkA_N; pfam02254 1196325002911 TrkA-C domain; Region: TrkA_C; pfam02080 1196325002912 TrkA-N domain; Region: TrkA_N; pfam02254 1196325002913 TrkA-C domain; Region: TrkA_C; pfam02080 1196325002914 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1196325002915 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1196325002916 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 1196325002917 S-adenosylmethionine binding site [chemical binding]; other site 1196325002918 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1196325002919 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1196325002920 putative active site [active] 1196325002921 substrate binding site [chemical binding]; other site 1196325002922 putative cosubstrate binding site; other site 1196325002923 catalytic site [active] 1196325002924 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1196325002925 substrate binding site [chemical binding]; other site 1196325002926 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 1196325002927 active site 1196325002928 catalytic residues [active] 1196325002929 metal binding site [ion binding]; metal-binding site 1196325002930 DNA protecting protein DprA; Region: dprA; TIGR00732 1196325002931 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1196325002932 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1196325002933 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1196325002934 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1196325002935 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1196325002936 NADP binding site [chemical binding]; other site 1196325002937 dimer interface [polypeptide binding]; other site 1196325002938 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1196325002939 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1196325002940 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1196325002941 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1196325002942 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1196325002943 shikimate binding site; other site 1196325002944 NAD(P) binding site [chemical binding]; other site 1196325002945 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1196325002946 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1196325002947 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1196325002948 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 1196325002949 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1196325002950 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1196325002951 Sulfatase; Region: Sulfatase; cl17466 1196325002952 choline-sulfatase; Region: chol_sulfatase; TIGR03417 1196325002953 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 1196325002954 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1196325002955 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325002956 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 1196325002957 dimerization interface [polypeptide binding]; other site 1196325002958 substrate binding pocket [chemical binding]; other site 1196325002959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325002960 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1196325002961 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 1196325002962 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1196325002963 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 1196325002964 substrate binding site [chemical binding]; other site 1196325002965 active site 1196325002966 catalytic residues [active] 1196325002967 heterodimer interface [polypeptide binding]; other site 1196325002968 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1196325002969 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 1196325002970 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325002971 catalytic residue [active] 1196325002972 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1196325002973 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325002974 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 1196325002975 dimerization interface [polypeptide binding]; other site 1196325002976 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1196325002977 Dodecin; Region: Dodecin; pfam07311 1196325002978 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 1196325002979 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1196325002980 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1196325002981 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1196325002982 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1196325002983 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 1196325002984 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 1196325002985 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1196325002986 Eukaryotic phosphomannomutase; Region: PMM; cl17107 1196325002987 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 1196325002988 motif II; other site 1196325002989 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1196325002990 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 1196325002991 trimer interface [polypeptide binding]; other site 1196325002992 putative metal binding site [ion binding]; other site 1196325002993 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1196325002994 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1196325002995 active site 1196325002996 Zn binding site [ion binding]; other site 1196325002997 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 1196325002998 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1196325002999 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1196325003000 Zn binding site [ion binding]; other site 1196325003001 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1196325003002 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 1196325003003 FeS/SAM binding site; other site 1196325003004 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 1196325003005 active site clefts [active] 1196325003006 zinc binding site [ion binding]; other site 1196325003007 dimer interface [polypeptide binding]; other site 1196325003008 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1196325003009 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1196325003010 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1196325003011 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 1196325003012 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1196325003013 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1196325003014 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1196325003015 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1196325003016 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 1196325003017 D-galactonate transporter; Region: 2A0114; TIGR00893 1196325003018 putative substrate translocation pore; other site 1196325003019 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1196325003020 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 1196325003021 putative active site [active] 1196325003022 catalytic residue [active] 1196325003023 elongation factor P; Validated; Region: PRK00529 1196325003024 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1196325003025 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 1196325003026 RNA binding site [nucleotide binding]; other site 1196325003027 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 1196325003028 RNA binding site [nucleotide binding]; other site 1196325003029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 1196325003030 conserved hypothetical protein, PP_1857 family; Region: efp_adjacent_2; TIGR03837 1196325003031 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1196325003032 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325003033 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325003034 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 1196325003035 putative effector binding pocket; other site 1196325003036 dimerization interface [polypeptide binding]; other site 1196325003037 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1196325003038 classical (c) SDRs; Region: SDR_c; cd05233 1196325003039 NAD(P) binding site [chemical binding]; other site 1196325003040 active site 1196325003041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325003042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325003043 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_3; cd08436 1196325003044 putative dimerization interface [polypeptide binding]; other site 1196325003045 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1196325003046 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 1196325003047 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1196325003048 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 1196325003049 N-terminal plug; other site 1196325003050 ligand-binding site [chemical binding]; other site 1196325003051 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1196325003052 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 1196325003053 substrate binding site [chemical binding]; other site 1196325003054 oxyanion hole (OAH) forming residues; other site 1196325003055 trimer interface [polypeptide binding]; other site 1196325003056 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 1196325003057 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1196325003058 putative acyl-acceptor binding pocket; other site 1196325003059 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1196325003060 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 1196325003061 oligomer interface [polypeptide binding]; other site 1196325003062 metal binding site [ion binding]; metal-binding site 1196325003063 metal binding site [ion binding]; metal-binding site 1196325003064 putative Cl binding site [ion binding]; other site 1196325003065 basic sphincter; other site 1196325003066 hydrophobic gate; other site 1196325003067 periplasmic entrance; other site 1196325003068 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325003069 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 1196325003070 ATP binding site [chemical binding]; other site 1196325003071 Mg2+ binding site [ion binding]; other site 1196325003072 G-X-G motif; other site 1196325003073 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1196325003074 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 1196325003075 active site 1196325003076 phosphorylation site [posttranslational modification] 1196325003077 intermolecular recognition site; other site 1196325003078 dimerization interface [polypeptide binding]; other site 1196325003079 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 1196325003080 binding surface 1196325003081 TPR motif; other site 1196325003082 TPR repeat; Region: TPR_11; pfam13414 1196325003083 TPR repeat; Region: TPR_11; pfam13414 1196325003084 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1196325003085 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 1196325003086 DNA binding residues [nucleotide binding] 1196325003087 dimerization interface [polypeptide binding]; other site 1196325003088 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1196325003089 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1196325003090 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1196325003091 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1196325003092 acyl-activating enzyme (AAE) consensus motif; other site 1196325003093 AMP binding site [chemical binding]; other site 1196325003094 active site 1196325003095 CoA binding site [chemical binding]; other site 1196325003096 glycerate dehydrogenase; Provisional; Region: PRK06487 1196325003097 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1196325003098 putative ligand binding site [chemical binding]; other site 1196325003099 putative NAD binding site [chemical binding]; other site 1196325003100 catalytic site [active] 1196325003101 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1196325003102 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1196325003103 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 1196325003104 S-adenosylmethionine binding site [chemical binding]; other site 1196325003105 YybP-yKoY leader; T1E_5778 1196325003106 Predicted membrane protein [Function unknown]; Region: COG2119 1196325003107 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1196325003108 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1196325003109 Peptidase family M48; Region: Peptidase_M48; pfam01435 1196325003110 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1196325003111 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1196325003112 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 1196325003113 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1196325003114 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1196325003115 putative acyl-acceptor binding pocket; other site 1196325003116 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 1196325003117 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1196325003118 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 1196325003119 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196325003120 active site 1196325003121 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196325003122 active site 1196325003123 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1196325003124 ferrochelatase; Reviewed; Region: hemH; PRK00035 1196325003125 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 1196325003126 C-terminal domain interface [polypeptide binding]; other site 1196325003127 active site 1196325003128 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 1196325003129 active site 1196325003130 N-terminal domain interface [polypeptide binding]; other site 1196325003131 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1196325003132 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325003133 NAD(P) binding site [chemical binding]; other site 1196325003134 active site 1196325003135 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 1196325003136 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196325003137 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1196325003138 Uncharacterized conserved protein [Function unknown]; Region: COG3272 1196325003139 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 1196325003140 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1196325003141 DNA binding residues [nucleotide binding] 1196325003142 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1196325003143 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 1196325003144 DNA photolyase; Region: DNA_photolyase; pfam00875 1196325003145 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325003146 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1196325003147 glutamate racemase; Provisional; Region: PRK00865 1196325003148 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1196325003149 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 1196325003150 ATP binding site [chemical binding]; other site 1196325003151 substrate interface [chemical binding]; other site 1196325003152 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1196325003153 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 1196325003154 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1196325003155 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1196325003156 RF-1 domain; Region: RF-1; pfam00472 1196325003157 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1196325003158 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1196325003159 tRNA; other site 1196325003160 putative tRNA binding site [nucleotide binding]; other site 1196325003161 putative NADP binding site [chemical binding]; other site 1196325003162 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1196325003163 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 1196325003164 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1196325003165 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196325003166 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325003167 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1196325003168 active site 1196325003169 catalytic triad [active] 1196325003170 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1196325003171 dimer interface [polypeptide binding]; other site 1196325003172 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1196325003173 PapC N-terminal domain; Region: PapC_N; pfam13954 1196325003174 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1196325003175 PapC C-terminal domain; Region: PapC_C; pfam13953 1196325003176 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1196325003177 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1196325003178 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1196325003179 Fimbrial protein; Region: Fimbrial; pfam00419 1196325003180 transcriptional regulator RcsB; Provisional; Region: PRK10840 1196325003181 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 1196325003182 active site 1196325003183 phosphorylation site [posttranslational modification] 1196325003184 intermolecular recognition site; other site 1196325003185 dimerization interface [polypeptide binding]; other site 1196325003186 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 1196325003187 DNA binding residues [nucleotide binding] 1196325003188 dimerization interface [polypeptide binding]; other site 1196325003189 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 1196325003190 dimer interface [polypeptide binding]; other site 1196325003191 phosphorylation site [posttranslational modification] 1196325003192 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 1196325003193 ATP binding site [chemical binding]; other site 1196325003194 Mg2+ binding site [ion binding]; other site 1196325003195 G-X-G motif; other site 1196325003196 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325003197 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 1196325003198 active site 1196325003199 phosphorylation site [posttranslational modification] 1196325003200 intermolecular recognition site; other site 1196325003201 dimerization interface [polypeptide binding]; other site 1196325003202 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 1196325003203 putative binding surface; other site 1196325003204 active site 1196325003205 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325003206 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 1196325003207 active site 1196325003208 phosphorylation site [posttranslational modification] 1196325003209 intermolecular recognition site; other site 1196325003210 dimerization interface [polypeptide binding]; other site 1196325003211 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 1196325003212 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1196325003213 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 1196325003214 dimer interface [polypeptide binding]; other site 1196325003215 phosphorylation site [posttranslational modification] 1196325003216 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 1196325003217 ATP binding site [chemical binding]; other site 1196325003218 Mg2+ binding site [ion binding]; other site 1196325003219 G-X-G motif; other site 1196325003220 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325003221 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 1196325003222 active site 1196325003223 phosphorylation site [posttranslational modification] 1196325003224 intermolecular recognition site; other site 1196325003225 dimerization interface [polypeptide binding]; other site 1196325003226 Fimbrial protein; Region: Fimbrial; pfam00419 1196325003227 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1196325003228 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1196325003229 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1196325003230 short chain dehydrogenase; Provisional; Region: PRK06180 1196325003231 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1196325003232 NADP binding site [chemical binding]; other site 1196325003233 active site 1196325003234 steroid binding site; other site 1196325003235 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1196325003236 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1196325003237 classical (c) SDRs; Region: SDR_c; cd05233 1196325003238 NAD(P) binding site [chemical binding]; other site 1196325003239 active site 1196325003240 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325003241 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325003242 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1196325003243 dimerization interface [polypeptide binding]; other site 1196325003244 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196325003245 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325003246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325003247 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 1196325003248 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1196325003249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325003250 NAD(P) binding site [chemical binding]; other site 1196325003251 active site 1196325003252 Predicted membrane protein [Function unknown]; Region: COG2259 1196325003253 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1196325003254 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1196325003255 putative NAD(P) binding site [chemical binding]; other site 1196325003256 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1196325003257 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196325003258 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325003259 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1196325003260 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 1196325003261 active site 1196325003262 FMN binding site [chemical binding]; other site 1196325003263 2,4-decadienoyl-CoA binding site; other site 1196325003264 catalytic residue [active] 1196325003265 4Fe-4S cluster binding site [ion binding]; other site 1196325003266 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1196325003267 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196325003268 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 1196325003269 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 1196325003270 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1196325003271 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1196325003272 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1196325003273 Condensation domain; Region: Condensation; pfam00668 1196325003274 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1196325003275 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1196325003276 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 1196325003277 acyl-activating enzyme (AAE) consensus motif; other site 1196325003278 AMP binding site [chemical binding]; other site 1196325003279 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1196325003280 Condensation domain; Region: Condensation; pfam00668 1196325003281 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1196325003282 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1196325003283 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1196325003284 acyl-activating enzyme (AAE) consensus motif; other site 1196325003285 AMP binding site [chemical binding]; other site 1196325003286 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1196325003287 Condensation domain; Region: Condensation; pfam00668 1196325003288 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1196325003289 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1196325003290 Condensation domain; Region: Condensation; pfam00668 1196325003291 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1196325003292 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1196325003293 acyl-activating enzyme (AAE) consensus motif; other site 1196325003294 AMP binding site [chemical binding]; other site 1196325003295 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1196325003296 Condensation domain; Region: Condensation; pfam00668 1196325003297 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1196325003298 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1196325003299 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 1196325003300 Condensation domain; Region: Condensation; pfam00668 1196325003301 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1196325003302 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1196325003303 acyl-activating enzyme (AAE) consensus motif; other site 1196325003304 AMP binding site [chemical binding]; other site 1196325003305 Secretin and TonB N terminus short domain; Region: STN; pfam07660 1196325003306 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1196325003307 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 1196325003308 N-terminal plug; other site 1196325003309 ligand-binding site [chemical binding]; other site 1196325003310 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1196325003311 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1196325003312 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1196325003313 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1196325003314 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 1196325003315 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1196325003316 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 1196325003317 Walker A motif; other site 1196325003318 ATP binding site [chemical binding]; other site 1196325003319 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1196325003320 Type IV secretory pathway, TrbD component [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TrbD; COG5268 1196325003321 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1196325003322 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 1196325003323 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 1196325003324 ATP binding site [chemical binding]; other site 1196325003325 Walker A motif; other site 1196325003326 hexamer interface [polypeptide binding]; other site 1196325003327 Walker B motif; other site 1196325003328 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 1196325003329 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 1196325003330 Walker A motif; other site 1196325003331 ATP binding site [chemical binding]; other site 1196325003332 Walker B motif; other site 1196325003333 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1196325003334 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325003335 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 1196325003336 dimerization interface [polypeptide binding]; other site 1196325003337 substrate binding pocket [chemical binding]; other site 1196325003338 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 1196325003339 putative deacylase active site [active] 1196325003340 2-isopropylmalate synthase; Validated; Region: PRK03739 1196325003341 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1196325003342 active site 1196325003343 catalytic residues [active] 1196325003344 metal binding site [ion binding]; metal-binding site 1196325003345 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1196325003346 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1196325003347 Helix-turn-helix domain; Region: HTH_18; pfam12833 1196325003348 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325003349 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 1196325003350 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 1196325003351 Domain of unknown function (DUF336); Region: DUF336; cl01249 1196325003352 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1196325003353 YheO-like PAS domain; Region: PAS_6; pfam08348 1196325003354 HTH domain; Region: HTH_22; pfam13309 1196325003355 hypothetical protein; Provisional; Region: PRK06815 1196325003356 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 1196325003357 tetramer interface [polypeptide binding]; other site 1196325003358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325003359 catalytic residue [active] 1196325003360 ornithine cyclodeaminase; Validated; Region: PRK06823 1196325003361 ectoine utilization protein EutC; Validated; Region: PRK08291 1196325003362 cytosine deaminase; Provisional; Region: PRK09230 1196325003363 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 1196325003364 active site 1196325003365 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1196325003366 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1196325003367 cytosine permease; Provisional; Region: codB; PRK11017 1196325003368 Na binding site [ion binding]; other site 1196325003369 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1196325003370 Putative transcription activator [Transcription]; Region: TenA; COG0819 1196325003371 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1196325003372 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1196325003373 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1196325003374 Cytochrome c; Region: Cytochrom_C; pfam00034 1196325003375 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325003376 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325003377 metal binding site [ion binding]; metal-binding site 1196325003378 active site 1196325003379 I-site; other site 1196325003380 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 1196325003381 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 1196325003382 DNA binding site [nucleotide binding] 1196325003383 dimer interface [polypeptide binding]; other site 1196325003384 active site 1196325003385 Int/Topo IB signature motif; other site 1196325003386 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1196325003387 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1196325003388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325003389 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 1196325003390 dimerization interface [polypeptide binding]; other site 1196325003391 substrate binding pocket [chemical binding]; other site 1196325003392 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1196325003393 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1196325003394 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1196325003395 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1196325003396 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1196325003397 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 1196325003398 putative substrate translocation pore; other site 1196325003399 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 1196325003400 [2Fe-2S] cluster binding site [ion binding]; other site 1196325003401 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1196325003402 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196325003403 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196325003404 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 1196325003405 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1196325003406 active site 1196325003407 catalytic tetrad [active] 1196325003408 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1196325003409 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 1196325003410 FMN binding site [chemical binding]; other site 1196325003411 active site 1196325003412 substrate binding site [chemical binding]; other site 1196325003413 catalytic residue [active] 1196325003414 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1196325003415 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1196325003416 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1196325003417 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325003418 LysR family transcriptional regulator; Provisional; Region: PRK14997 1196325003419 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 1196325003420 putative effector binding pocket; other site 1196325003421 dimerization interface [polypeptide binding]; other site 1196325003422 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1196325003423 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325003424 Benzoate membrane transport protein; Region: BenE; pfam03594 1196325003425 benzoate transporter; Region: benE; TIGR00843 1196325003426 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1196325003427 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 1196325003428 dimer interface [polypeptide binding]; other site 1196325003429 active site 1196325003430 benzoate transport; Region: 2A0115; TIGR00895 1196325003431 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 1196325003432 putative substrate translocation pore; other site 1196325003433 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 1196325003434 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 1196325003435 putative NAD(P) binding site [chemical binding]; other site 1196325003436 active site 1196325003437 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 1196325003438 NAD binding pocket [chemical binding]; other site 1196325003439 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1196325003440 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 1196325003441 catalytic loop [active] 1196325003442 iron binding site [ion binding]; other site 1196325003443 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 1196325003444 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 1196325003445 FAD binding pocket [chemical binding]; other site 1196325003446 conserved FAD binding motif [chemical binding]; other site 1196325003447 phosphate binding motif [ion binding]; other site 1196325003448 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 1196325003449 inter-subunit interface; other site 1196325003450 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1196325003451 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 1196325003452 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 1196325003453 putative alpha subunit interface [polypeptide binding]; other site 1196325003454 putative active site [active] 1196325003455 putative substrate binding site [chemical binding]; other site 1196325003456 Fe binding site [ion binding]; other site 1196325003457 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1196325003458 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196325003459 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325003460 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1196325003461 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 1196325003462 active site 1196325003463 universal stress protein UspE; Provisional; Region: PRK11175 1196325003464 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 1196325003465 Ligand Binding Site [chemical binding]; other site 1196325003466 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 1196325003467 Ligand Binding Site [chemical binding]; other site 1196325003468 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1196325003469 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 1196325003470 N-terminal plug; other site 1196325003471 ligand-binding site [chemical binding]; other site 1196325003472 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1196325003473 Protein of unknown function (DUF1341); Region: DUF1341; cl06211 1196325003474 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325003475 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325003476 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 1196325003477 putative dimerization interface [polypeptide binding]; other site 1196325003478 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 1196325003479 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1196325003480 NAD(P) binding site [chemical binding]; other site 1196325003481 catalytic residues [active] 1196325003482 AAA domain; Region: AAA_30; pfam13604 1196325003483 Helix-turn-helix domain; Region: HTH_18; pfam12833 1196325003484 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1196325003485 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1196325003486 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1196325003487 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1196325003488 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1196325003489 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1196325003490 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1196325003491 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1196325003492 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1196325003493 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1196325003494 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325003495 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1196325003496 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 1196325003497 dimerization interface [polypeptide binding]; other site 1196325003498 substrate binding pocket [chemical binding]; other site 1196325003499 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1196325003500 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1196325003501 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1196325003502 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1196325003503 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 1196325003504 DXD motif; other site 1196325003505 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 1196325003506 putative ADP-binding pocket [chemical binding]; other site 1196325003507 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196325003508 Protein of unknown function (DUF535); Region: DUF535; pfam04393 1196325003509 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1196325003510 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 1196325003511 active site 1196325003512 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 1196325003513 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 1196325003514 trimer interface [polypeptide binding]; other site 1196325003515 active site 1196325003516 substrate binding site [chemical binding]; other site 1196325003517 CoA binding site [chemical binding]; other site 1196325003518 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1196325003519 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1196325003520 Probable Catalytic site; other site 1196325003521 metal-binding site 1196325003522 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1196325003523 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1196325003524 trimer interface [polypeptide binding]; other site 1196325003525 active site 1196325003526 substrate binding site [chemical binding]; other site 1196325003527 CoA binding site [chemical binding]; other site 1196325003528 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1196325003529 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1196325003530 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1196325003531 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1196325003532 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1196325003533 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1196325003534 NAD binding site [chemical binding]; other site 1196325003535 homodimer interface [polypeptide binding]; other site 1196325003536 active site 1196325003537 substrate binding site [chemical binding]; other site 1196325003538 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 1196325003539 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 1196325003540 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1196325003541 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1196325003542 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1196325003543 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 1196325003544 non-specific DNA binding site [nucleotide binding]; other site 1196325003545 salt bridge; other site 1196325003546 sequence-specific DNA binding site [nucleotide binding]; other site 1196325003547 Cupin domain; Region: Cupin_2; pfam07883 1196325003548 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1196325003549 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1196325003550 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1196325003551 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325003552 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325003553 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 1196325003554 putative dimerization interface [polypeptide binding]; other site 1196325003555 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1196325003556 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 1196325003557 active site 1196325003558 catalytic tetrad [active] 1196325003559 dihydroorotase; Validated; Region: pyrC; PRK09357 1196325003560 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 1196325003561 active site 1196325003562 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1196325003563 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1196325003564 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1196325003565 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1196325003566 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196325003567 active site 1196325003568 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1196325003569 hypothetical protein; Validated; Region: PRK00228 1196325003570 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1196325003571 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1196325003572 glutathione synthetase; Provisional; Region: PRK05246 1196325003573 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1196325003574 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1196325003575 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325003576 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 1196325003577 active site 1196325003578 phosphorylation site [posttranslational modification] 1196325003579 intermolecular recognition site; other site 1196325003580 dimerization interface [polypeptide binding]; other site 1196325003581 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325003582 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 1196325003583 active site 1196325003584 phosphorylation site [posttranslational modification] 1196325003585 intermolecular recognition site; other site 1196325003586 dimerization interface [polypeptide binding]; other site 1196325003587 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1196325003588 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1196325003589 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325003590 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325003591 dimer interface [polypeptide binding]; other site 1196325003592 putative CheW interface [polypeptide binding]; other site 1196325003593 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 1196325003594 putative binding surface; other site 1196325003595 active site 1196325003596 Hpt domain; Region: Hpt; pfam01627 1196325003597 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 1196325003598 putative binding surface; other site 1196325003599 active site 1196325003600 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1196325003601 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1196325003602 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 1196325003603 ATP binding site [chemical binding]; other site 1196325003604 Mg2+ binding site [ion binding]; other site 1196325003605 G-X-G motif; other site 1196325003606 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 1196325003607 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325003608 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 1196325003609 active site 1196325003610 phosphorylation site [posttranslational modification] 1196325003611 intermolecular recognition site; other site 1196325003612 dimerization interface [polypeptide binding]; other site 1196325003613 CheW-like domain; Region: CheW; pfam01584 1196325003614 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1196325003615 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1196325003616 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1196325003617 RNA methyltransferase, RsmE family; Region: TIGR00046 1196325003618 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 1196325003619 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 1196325003620 inhibitor-cofactor binding pocket; inhibition site 1196325003621 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325003622 catalytic residue [active] 1196325003623 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 1196325003624 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1196325003625 hypothetical protein; Provisional; Region: PRK03757 1196325003626 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1196325003627 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 1196325003628 ATP binding site [chemical binding]; other site 1196325003629 Mg++ binding site [ion binding]; other site 1196325003630 motif III; other site 1196325003631 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 1196325003632 nucleotide binding region [chemical binding]; other site 1196325003633 ATP-binding site [chemical binding]; other site 1196325003634 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325003635 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 1196325003636 substrate binding pocket [chemical binding]; other site 1196325003637 membrane-bound complex binding site; other site 1196325003638 hinge residues; other site 1196325003639 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 1196325003640 FAD binding site [chemical binding]; other site 1196325003641 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1196325003642 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1196325003643 homotetramer interface [polypeptide binding]; other site 1196325003644 ligand binding site [chemical binding]; other site 1196325003645 catalytic site [active] 1196325003646 NAD binding site [chemical binding]; other site 1196325003647 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 1196325003648 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1196325003649 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1196325003650 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1196325003651 EamA-like transporter family; Region: EamA; pfam00892 1196325003652 MAPEG family; Region: MAPEG; cl09190 1196325003653 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1196325003654 MltA specific insert domain; Region: MltA; pfam03562 1196325003655 3D domain; Region: 3D; pfam06725 1196325003656 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1196325003657 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1196325003658 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 1196325003659 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; cl03295 1196325003660 nucleotide binding pocket [chemical binding]; other site 1196325003661 K-X-D-G motif; other site 1196325003662 catalytic site [active] 1196325003663 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1196325003664 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1196325003665 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1196325003666 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1196325003667 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1196325003668 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 1196325003669 putative DNA binding site [nucleotide binding]; other site 1196325003670 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1196325003671 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 1196325003672 S-adenosylmethionine binding site [chemical binding]; other site 1196325003673 transketolase; Reviewed; Region: PRK12753 1196325003674 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 1196325003675 TPP-binding site [chemical binding]; other site 1196325003676 dimer interface [polypeptide binding]; other site 1196325003677 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 1196325003678 PYR/PP interface [polypeptide binding]; other site 1196325003679 dimer interface [polypeptide binding]; other site 1196325003680 TPP binding site [chemical binding]; other site 1196325003681 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1196325003682 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 1196325003683 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1196325003684 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1196325003685 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1196325003686 Phosphoglycerate kinase; Region: PGK; pfam00162 1196325003687 substrate binding site [chemical binding]; other site 1196325003688 hinge regions; other site 1196325003689 ADP binding site [chemical binding]; other site 1196325003690 catalytic site [active] 1196325003691 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1196325003692 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 1196325003693 intersubunit interface [polypeptide binding]; other site 1196325003694 active site 1196325003695 zinc binding site [ion binding]; other site 1196325003696 Na+ binding site [ion binding]; other site 1196325003697 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325003698 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 1196325003699 active site 1196325003700 phosphorylation site [posttranslational modification] 1196325003701 intermolecular recognition site; other site 1196325003702 dimerization interface [polypeptide binding]; other site 1196325003703 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 1196325003704 PAS domain; Region: PAS_9; pfam13426 1196325003705 putative active site [active] 1196325003706 heme pocket [chemical binding]; other site 1196325003707 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325003708 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325003709 metal binding site [ion binding]; metal-binding site 1196325003710 active site 1196325003711 I-site; other site 1196325003712 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 1196325003713 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1196325003714 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 1196325003715 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1196325003716 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 1196325003717 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325003718 substrate binding pocket [chemical binding]; other site 1196325003719 membrane-bound complex binding site; other site 1196325003720 hinge residues; other site 1196325003721 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1196325003722 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1196325003723 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1196325003724 HI0933-like protein; Region: HI0933_like; pfam03486 1196325003725 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196325003726 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1196325003727 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 1196325003728 ATP binding site [chemical binding]; other site 1196325003729 Mg++ binding site [ion binding]; other site 1196325003730 motif III; other site 1196325003731 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 1196325003732 nucleotide binding region [chemical binding]; other site 1196325003733 ATP-binding site [chemical binding]; other site 1196325003734 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1196325003735 putative RNA binding site [nucleotide binding]; other site 1196325003736 putative transporter; Provisional; Region: PRK10504 1196325003737 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 1196325003738 putative substrate translocation pore; other site 1196325003739 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1196325003740 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1196325003741 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1196325003742 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1196325003743 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196325003744 active site 1196325003745 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1196325003746 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 1196325003747 Predicted transcriptional regulator [Transcription]; Region: COG3905 1196325003748 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1196325003749 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1196325003750 Glutamate binding site [chemical binding]; other site 1196325003751 NAD binding site [chemical binding]; other site 1196325003752 catalytic residues [active] 1196325003753 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1196325003754 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1196325003755 Na binding site [ion binding]; other site 1196325003756 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1196325003757 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1196325003758 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1196325003759 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1196325003760 putative ADP-binding pocket [chemical binding]; other site 1196325003761 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196325003762 Mig-14; Region: Mig-14; pfam07395 1196325003763 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1196325003764 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1196325003765 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196325003766 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1196325003767 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196325003768 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 1196325003769 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; cd05120 1196325003770 active site 1196325003771 substrate binding site [chemical binding]; other site 1196325003772 ATP binding site [chemical binding]; other site 1196325003773 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1196325003774 O-Antigen ligase; Region: Wzy_C; pfam04932 1196325003775 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1196325003776 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1196325003777 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1196325003778 Walker A/P-loop; other site 1196325003779 ATP binding site [chemical binding]; other site 1196325003780 Q-loop/lid; other site 1196325003781 ABC transporter signature motif; other site 1196325003782 Walker B; other site 1196325003783 D-loop; other site 1196325003784 H-loop/switch region; other site 1196325003785 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1196325003786 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 1196325003787 putative ribose interaction site [chemical binding]; other site 1196325003788 putative ADP binding site [chemical binding]; other site 1196325003789 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1196325003790 active site 1196325003791 nucleotide binding site [chemical binding]; other site 1196325003792 HIGH motif; other site 1196325003793 KMSKS motif; other site 1196325003794 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 1196325003795 active site 1196325003796 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1196325003797 catalytic tetrad [active] 1196325003798 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1196325003799 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196325003800 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1196325003801 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325003802 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325003803 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 1196325003804 dimerization interface [polypeptide binding]; other site 1196325003805 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1196325003806 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1196325003807 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 1196325003808 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 1196325003809 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 1196325003810 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1196325003811 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325003812 Walker A/P-loop; other site 1196325003813 ATP binding site [chemical binding]; other site 1196325003814 Q-loop/lid; other site 1196325003815 ABC transporter signature motif; other site 1196325003816 Walker B; other site 1196325003817 D-loop; other site 1196325003818 H-loop/switch region; other site 1196325003819 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1196325003820 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325003821 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325003822 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 1196325003823 calcium binding site 1 [ion binding]; other site 1196325003824 active site 1196325003825 catalytic triad [active] 1196325003826 calcium binding site 2 [ion binding]; other site 1196325003827 calcium binding site 3 [ion binding]; other site 1196325003828 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1196325003829 catalytic residues [active] 1196325003830 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 1196325003831 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1196325003832 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1196325003833 ThiC-associated domain; Region: ThiC-associated; pfam13667 1196325003834 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1196325003835 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1196325003836 Na binding site [ion binding]; other site 1196325003837 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1196325003838 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1196325003839 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 1196325003840 dimer interface [polypeptide binding]; other site 1196325003841 ADP-ribose binding site [chemical binding]; other site 1196325003842 active site 1196325003843 nudix motif; other site 1196325003844 metal binding site [ion binding]; metal-binding site 1196325003845 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 1196325003846 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1196325003847 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1196325003848 active site 1196325003849 metal binding site [ion binding]; metal-binding site 1196325003850 hexamer interface [polypeptide binding]; other site 1196325003851 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1196325003852 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196325003853 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1196325003854 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 1196325003855 ATP binding site [chemical binding]; other site 1196325003856 Mg2+ binding site [ion binding]; other site 1196325003857 G-X-G motif; other site 1196325003858 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 1196325003859 anchoring element; other site 1196325003860 dimer interface [polypeptide binding]; other site 1196325003861 ATP binding site [chemical binding]; other site 1196325003862 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 1196325003863 active site 1196325003864 metal binding site [ion binding]; metal-binding site 1196325003865 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1196325003866 SdiA-regulated; Region: SdiA-regulated; cd09971 1196325003867 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1196325003868 catalytic motif [active] 1196325003869 Catalytic residue [active] 1196325003870 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1196325003871 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 1196325003872 CAP-like domain; other site 1196325003873 active site 1196325003874 primary dimer interface [polypeptide binding]; other site 1196325003875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1196325003876 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1196325003877 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1196325003878 FAD binding domain; Region: FAD_binding_4; pfam01565 1196325003879 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1196325003880 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1196325003881 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1196325003882 active site 1196325003883 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1196325003884 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1196325003885 Ligand binding site; other site 1196325003886 oligomer interface; other site 1196325003887 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1196325003888 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 1196325003889 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1196325003890 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1196325003891 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1196325003892 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1196325003893 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1196325003894 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1196325003895 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1196325003896 Competence protein; Region: Competence; pfam03772 1196325003897 inner membrane transport permease; Provisional; Region: PRK15066 1196325003898 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1196325003899 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1196325003900 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325003901 Walker B; other site 1196325003902 D-loop; other site 1196325003903 H-loop/switch region; other site 1196325003904 Cell division inhibitor SulA; Region: SulA; cl01880 1196325003905 LexA repressor; Validated; Region: PRK00215 1196325003906 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1196325003907 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 1196325003908 Catalytic site [active] 1196325003909 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196325003910 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325003911 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 1196325003912 beta-hexosaminidase; Provisional; Region: PRK05337 1196325003913 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1196325003914 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1196325003915 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1196325003916 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 1196325003917 ATP binding site [chemical binding]; other site 1196325003918 putative Mg++ binding site [ion binding]; other site 1196325003919 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 1196325003920 nucleotide binding region [chemical binding]; other site 1196325003921 ATP-binding site [chemical binding]; other site 1196325003922 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1196325003923 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1196325003924 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1196325003925 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 1196325003926 ATP binding site [chemical binding]; other site 1196325003927 putative Mg++ binding site [ion binding]; other site 1196325003928 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 1196325003929 nucleotide binding region [chemical binding]; other site 1196325003930 ATP-binding site [chemical binding]; other site 1196325003931 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1196325003932 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 1196325003933 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1196325003934 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1196325003935 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1196325003936 ApbE family; Region: ApbE; pfam02424 1196325003937 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1196325003938 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196325003939 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1196325003940 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1196325003941 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1196325003942 active site 1196325003943 catalytic site [active] 1196325003944 metal binding site [ion binding]; metal-binding site 1196325003945 PilZ domain; Region: PilZ; pfam07238 1196325003946 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1196325003947 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1196325003948 FtsX-like permease family; Region: FtsX; pfam02687 1196325003949 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1196325003950 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1196325003951 Walker A/P-loop; other site 1196325003952 ATP binding site [chemical binding]; other site 1196325003953 Q-loop/lid; other site 1196325003954 ABC transporter signature motif; other site 1196325003955 Walker B; other site 1196325003956 D-loop; other site 1196325003957 H-loop/switch region; other site 1196325003958 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1196325003959 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1196325003960 FtsX-like permease family; Region: FtsX; pfam02687 1196325003961 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1196325003962 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 1196325003963 dimerization interface [polypeptide binding]; other site 1196325003964 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 1196325003965 dimer interface [polypeptide binding]; other site 1196325003966 phosphorylation site [posttranslational modification] 1196325003967 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 1196325003968 ATP binding site [chemical binding]; other site 1196325003969 Mg2+ binding site [ion binding]; other site 1196325003970 G-X-G motif; other site 1196325003971 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1196325003972 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 1196325003973 active site 1196325003974 phosphorylation site [posttranslational modification] 1196325003975 intermolecular recognition site; other site 1196325003976 dimerization interface [polypeptide binding]; other site 1196325003977 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 1196325003978 DNA binding site [nucleotide binding] 1196325003979 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1196325003980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1196325003981 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1196325003982 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1196325003983 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 1196325003984 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 1196325003985 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1196325003986 PilZ domain; Region: PilZ; pfam07238 1196325003987 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325003988 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 1196325003989 active site 1196325003990 phosphorylation site [posttranslational modification] 1196325003991 intermolecular recognition site; other site 1196325003992 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1196325003993 dimerization interface [polypeptide binding]; other site 1196325003994 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1196325003995 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1196325003996 anti sigma factor interaction site; other site 1196325003997 regulatory phosphorylation site [posttranslational modification]; other site 1196325003998 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1196325003999 metal binding site [ion binding]; metal-binding site 1196325004000 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1196325004001 putative active site [active] 1196325004002 putative metal binding site [ion binding]; other site 1196325004003 transaldolase-like protein; Provisional; Region: PTZ00411 1196325004004 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1196325004005 active site 1196325004006 dimer interface [polypeptide binding]; other site 1196325004007 catalytic residue [active] 1196325004008 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1196325004009 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 1196325004010 FMN binding site [chemical binding]; other site 1196325004011 active site 1196325004012 catalytic residues [active] 1196325004013 substrate binding site [chemical binding]; other site 1196325004014 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325004015 Q-loop/lid; other site 1196325004016 ABC transporter signature motif; other site 1196325004017 D-loop; other site 1196325004018 H-loop/switch region; other site 1196325004019 Chorismate mutase type II; Region: CM_2; smart00830 1196325004020 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196325004021 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196325004022 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325004023 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 1196325004024 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1196325004025 tetramer interface [polypeptide binding]; other site 1196325004026 active site 1196325004027 Mg2+/Mn2+ binding site [ion binding]; other site 1196325004028 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 1196325004029 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 1196325004030 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1196325004031 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1196325004032 transcriptional activator TtdR; Provisional; Region: PRK09801 1196325004033 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325004034 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 1196325004035 putative effector binding pocket; other site 1196325004036 putative dimerization interface [polypeptide binding]; other site 1196325004037 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1196325004038 oxidoreductase; Provisional; Region: PRK12743 1196325004039 putative NAD(P) binding site [chemical binding]; other site 1196325004040 putative active site [active] 1196325004041 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1196325004042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325004043 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 1196325004044 dimerization interface [polypeptide binding]; other site 1196325004045 substrate binding pocket [chemical binding]; other site 1196325004046 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 1196325004047 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1196325004048 non-specific DNA binding site [nucleotide binding]; other site 1196325004049 salt bridge; other site 1196325004050 sequence-specific DNA binding site [nucleotide binding]; other site 1196325004051 Cupin domain; Region: Cupin_2; pfam07883 1196325004052 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1196325004053 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1196325004054 Peptidase C26; Region: Peptidase_C26; pfam07722 1196325004055 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1196325004056 catalytic triad [active] 1196325004057 putative aminotransferase; Validated; Region: PRK07480 1196325004058 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 1196325004059 inhibitor-cofactor binding pocket; inhibition site 1196325004060 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325004061 catalytic residue [active] 1196325004062 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1196325004063 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 1196325004064 non-specific DNA binding site [nucleotide binding]; other site 1196325004065 salt bridge; other site 1196325004066 sequence-specific DNA binding site [nucleotide binding]; other site 1196325004067 Cupin domain; Region: Cupin_2; pfam07883 1196325004068 putative kissing complex interaction region; other site 1196325004069 putative RNA binding sites [nucleotide binding]; other site 1196325004070 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 1196325004071 ProQ/FINO family; Region: ProQ; pfam04352 1196325004072 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 1196325004073 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 1196325004074 putative dimer interface [polypeptide binding]; other site 1196325004075 [2Fe-2S] cluster binding site [ion binding]; other site 1196325004076 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 1196325004077 putative dimer interface [polypeptide binding]; other site 1196325004078 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1196325004079 SLBB domain; Region: SLBB; pfam10531 1196325004080 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1196325004081 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1196325004082 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 1196325004083 catalytic loop [active] 1196325004084 iron binding site [ion binding]; other site 1196325004085 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1196325004086 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 1196325004087 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 1196325004088 [4Fe-4S] binding site [ion binding]; other site 1196325004089 molybdopterin cofactor binding site; other site 1196325004090 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 1196325004091 molybdopterin cofactor binding site; other site 1196325004092 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 1196325004093 universal stress protein UspE; Provisional; Region: PRK11175 1196325004094 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 1196325004095 Ligand Binding Site [chemical binding]; other site 1196325004096 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 1196325004097 Ligand Binding Site [chemical binding]; other site 1196325004098 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1196325004099 active site 1196325004100 dinuclear metal binding site [ion binding]; other site 1196325004101 dimerization interface [polypeptide binding]; other site 1196325004102 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1196325004103 Water Stress and Hypersensitive response; Region: WHy; smart00769 1196325004104 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325004105 RNA polymerase sigma factor; Reviewed; Region: PRK12527 1196325004106 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 1196325004107 DNA binding residues [nucleotide binding] 1196325004108 FecR protein; Region: FecR; pfam04773 1196325004109 Secretin and TonB N terminus short domain; Region: STN; smart00965 1196325004110 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1196325004111 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 1196325004112 N-terminal plug; other site 1196325004113 ligand-binding site [chemical binding]; other site 1196325004114 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 1196325004115 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1196325004116 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1196325004117 Walker A/P-loop; other site 1196325004118 ATP binding site [chemical binding]; other site 1196325004119 Q-loop/lid; other site 1196325004120 ABC transporter signature motif; other site 1196325004121 Walker B; other site 1196325004122 D-loop; other site 1196325004123 H-loop/switch region; other site 1196325004124 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1196325004125 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1196325004126 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1196325004127 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1196325004128 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1196325004129 Walker A/P-loop; other site 1196325004130 ATP binding site [chemical binding]; other site 1196325004131 Q-loop/lid; other site 1196325004132 ABC transporter signature motif; other site 1196325004133 Walker B; other site 1196325004134 D-loop; other site 1196325004135 H-loop/switch region; other site 1196325004136 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1196325004137 FtsX-like permease family; Region: FtsX; pfam02687 1196325004138 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1196325004139 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325004140 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 1196325004141 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325004142 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1196325004143 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 1196325004144 homodimer interface [polypeptide binding]; other site 1196325004145 oligonucleotide binding site [chemical binding]; other site 1196325004146 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1196325004147 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 1196325004148 RNA binding surface [nucleotide binding]; other site 1196325004149 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1196325004150 active site 1196325004151 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1196325004152 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 1196325004153 motif II; other site 1196325004154 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1196325004155 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1196325004156 tandem repeat interface [polypeptide binding]; other site 1196325004157 oligomer interface [polypeptide binding]; other site 1196325004158 active site residues [active] 1196325004159 Maf-like protein; Region: Maf; pfam02545 1196325004160 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 1196325004161 active site 1196325004162 dimer interface [polypeptide binding]; other site 1196325004163 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1196325004164 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1196325004165 putative phosphate acyltransferase; Provisional; Region: PRK05331 1196325004166 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1196325004167 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1196325004168 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1196325004169 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1196325004170 NAD(P) binding site [chemical binding]; other site 1196325004171 homotetramer interface [polypeptide binding]; other site 1196325004172 homodimer interface [polypeptide binding]; other site 1196325004173 active site 1196325004174 acyl carrier protein; Provisional; Region: acpP; PRK00982 1196325004175 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1196325004176 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 1196325004177 dimer interface [polypeptide binding]; other site 1196325004178 active site 1196325004179 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1196325004180 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 1196325004181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325004182 catalytic residue [active] 1196325004183 YceG-like family; Region: YceG; pfam02618 1196325004184 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1196325004185 dimerization interface [polypeptide binding]; other site 1196325004186 thymidylate kinase; Validated; Region: tmk; PRK00698 1196325004187 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 1196325004188 TMP-binding site; other site 1196325004189 ATP-binding site [chemical binding]; other site 1196325004190 DNA polymerase III subunit delta'; Validated; Region: PRK05707 1196325004191 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 1196325004192 Walker A motif; other site 1196325004193 ATP binding site [chemical binding]; other site 1196325004194 Walker B motif; other site 1196325004195 arginine finger; other site 1196325004196 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1196325004197 active site 1196325004198 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 1196325004199 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 1196325004200 S-adenosylmethionine binding site [chemical binding]; other site 1196325004201 short chain dehydrogenase; Provisional; Region: PRK07035 1196325004202 classical (c) SDRs; Region: SDR_c; cd05233 1196325004203 NAD(P) binding site [chemical binding]; other site 1196325004204 active site 1196325004205 Phosphotransferase enzyme family; Region: APH; pfam01636 1196325004206 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 1196325004207 putative active site [active] 1196325004208 putative substrate binding site [chemical binding]; other site 1196325004209 ATP binding site [chemical binding]; other site 1196325004210 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1196325004211 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 1196325004212 catalytic core [active] 1196325004213 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1196325004214 putative inner membrane peptidase; Provisional; Region: PRK11778 1196325004215 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1196325004216 tandem repeat interface [polypeptide binding]; other site 1196325004217 oligomer interface [polypeptide binding]; other site 1196325004218 active site residues [active] 1196325004219 integrase; Provisional; Region: int; PHA02601 1196325004220 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 1196325004221 catalytic residues [active] 1196325004222 Int/Topo IB signature motif; other site 1196325004223 Helix-turn-helix domain; Region: HTH_17; pfam12728 1196325004224 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1196325004225 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1196325004226 Walker A/P-loop; other site 1196325004227 ATP binding site [chemical binding]; other site 1196325004228 Q-loop/lid; other site 1196325004229 ABC transporter signature motif; other site 1196325004230 Walker B; other site 1196325004231 D-loop; other site 1196325004232 H-loop/switch region; other site 1196325004233 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 1196325004234 HNH nucleases; Region: HNHc; smart00507 1196325004235 hypothetical protein; Provisional; Region: PRK04140 1196325004236 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cl02206 1196325004237 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 1196325004238 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1196325004239 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 1196325004240 non-specific DNA binding site [nucleotide binding]; other site 1196325004241 salt bridge; other site 1196325004242 sequence-specific DNA binding site [nucleotide binding]; other site 1196325004243 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 1196325004244 Predicted transcriptional regulator [Transcription]; Region: COG2932 1196325004245 Catalytic site [active] 1196325004246 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 1196325004247 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1196325004248 Helix-turn-helix domain; Region: HTH_36; pfam13730 1196325004249 Tc5 transposase DNA-binding domain; Region: HTH_Tnp_Tc5; cl12115 1196325004250 Replication protein P; Region: Phage_lambda_P; pfam06992 1196325004251 NinB protein; Region: NinB; pfam05772 1196325004252 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 1196325004253 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 1196325004254 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 1196325004255 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1196325004256 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3566 1196325004257 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 1196325004258 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4834 1196325004259 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 1196325004260 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 1196325004261 Macro domain, 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 ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 1196325004262 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 1196325004263 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 1196325004264 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1196325004265 catalytic residue [active] 1196325004266 Baseplate J-like protein; Region: Baseplate_J; cl01294 1196325004267 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 1196325004268 Terminase small subunit; Region: Terminase_2; cl01513 1196325004269 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 1196325004270 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 1196325004271 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 1196325004272 The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing...; Region: bacteriophage_lambda_lysozyme; cd00736 1196325004273 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1196325004274 catalytic residue [active] 1196325004275 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 1196325004276 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 1196325004277 active site 1196325004278 DNA binding site [nucleotide binding] 1196325004279 Int/Topo IB signature motif; other site 1196325004280 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 1196325004281 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1196325004282 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 1196325004283 cofactor binding site; other site 1196325004284 DNA binding site [nucleotide binding] 1196325004285 substrate interaction site [chemical binding]; other site 1196325004286 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 1196325004287 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 1196325004288 Active Sites [active] 1196325004289 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1196325004290 ERF superfamily; Region: ERF; pfam04404 1196325004291 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK09822 1196325004292 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1196325004293 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 1196325004294 non-specific DNA binding site [nucleotide binding]; other site 1196325004295 salt bridge; other site 1196325004296 sequence-specific DNA binding site [nucleotide binding]; other site 1196325004297 Predicted transcriptional regulator [Transcription]; Region: COG2932 1196325004298 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 1196325004299 Catalytic site [active] 1196325004300 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 1196325004301 non-specific DNA binding site [nucleotide binding]; other site 1196325004302 salt bridge; other site 1196325004303 sequence-specific DNA binding site [nucleotide binding]; other site 1196325004304 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1196325004305 Helix-turn-helix domain; Region: HTH_36; pfam13730 1196325004306 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 1196325004307 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 1196325004308 active site 1196325004309 large terminase protein; Provisional; Region: 17; PHA02533 1196325004310 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 1196325004311 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 1196325004312 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1196325004313 Myosin tail; Region: Myosin_tail_1; pfam01576 1196325004314 LEM-like domain of lamina-associated polypeptide 2 (LAP2) and similar proteins; Region: LEM_like; cd12935 1196325004315 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 1196325004316 Phage tail protein; Region: Phage_tail_3; pfam08813 1196325004317 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 1196325004318 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 1196325004319 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 1196325004320 Phage-related minor tail protein [Function unknown]; Region: COG5281 1196325004321 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 1196325004322 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1196325004323 Phage minor tail protein; Region: Phage_min_tail; pfam05939 1196325004324 Phage-related protein [Function unknown]; Region: gp18; COG4672 1196325004325 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1196325004326 MPN+ (JAMM) motif; other site 1196325004327 Zinc-binding site [ion binding]; other site 1196325004328 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1196325004329 NlpC/P60 family; Region: NLPC_P60; cl17555 1196325004330 Phage-related protein, tail component [Function unknown]; Region: COG4723 1196325004331 Phage-related protein, tail component [Function unknown]; Region: COG4733 1196325004332 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1196325004333 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1196325004334 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1196325004335 catalytic residue [active] 1196325004336 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1196325004337 catalytic residue [active] 1196325004338 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 1196325004339 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 1196325004340 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1196325004341 putative NAD(P) binding site [chemical binding]; other site 1196325004342 active site 1196325004343 putative substrate binding site [chemical binding]; other site 1196325004344 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1196325004345 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 1196325004346 NAD binding site [chemical binding]; other site 1196325004347 substrate binding site [chemical binding]; other site 1196325004348 catalytic Zn binding site [ion binding]; other site 1196325004349 tetramer interface [polypeptide binding]; other site 1196325004350 structural Zn binding site [ion binding]; other site 1196325004351 Predicted membrane protein [Function unknown]; Region: COG2259 1196325004352 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 1196325004353 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1196325004354 putative active site [active] 1196325004355 heme pocket [chemical binding]; other site 1196325004356 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 1196325004357 dimer interface [polypeptide binding]; other site 1196325004358 phosphorylation site [posttranslational modification] 1196325004359 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 1196325004360 ATP binding site [chemical binding]; other site 1196325004361 Mg2+ binding site [ion binding]; other site 1196325004362 G-X-G motif; other site 1196325004363 circadian clock protein KaiC; Reviewed; Region: PRK09302 1196325004364 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 1196325004365 Walker A motif; other site 1196325004366 ATP binding site [chemical binding]; other site 1196325004367 Walker B motif; other site 1196325004368 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 1196325004369 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 1196325004370 Walker A motif; other site 1196325004371 Walker A motif; other site 1196325004372 ATP binding site [chemical binding]; other site 1196325004373 Walker B motif; other site 1196325004374 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325004375 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 1196325004376 active site 1196325004377 phosphorylation site [posttranslational modification] 1196325004378 intermolecular recognition site; other site 1196325004379 dimerization interface [polypeptide binding]; other site 1196325004380 carbon storage regulator; Provisional; Region: PRK01712 1196325004381 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1196325004382 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 1196325004383 active site 1196325004384 DNA binding site [nucleotide binding] 1196325004385 Int/Topo IB signature motif; other site 1196325004386 catalytic residues [active] 1196325004387 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325004388 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 1196325004389 Walker A/P-loop; other site 1196325004390 ATP binding site [chemical binding]; other site 1196325004391 Q-loop/lid; other site 1196325004392 ABC transporter signature motif; other site 1196325004393 Walker B; other site 1196325004394 D-loop; other site 1196325004395 H-loop/switch region; other site 1196325004396 TOBE domain; Region: TOBE; cl01440 1196325004397 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1196325004398 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 1196325004399 dimer interface [polypeptide binding]; other site 1196325004400 conserved gate region; other site 1196325004401 putative PBP binding loops; other site 1196325004402 ABC-ATPase subunit interface; other site 1196325004403 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1196325004404 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1196325004405 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1196325004406 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 1196325004407 FMN binding site [chemical binding]; other site 1196325004408 substrate binding site [chemical binding]; other site 1196325004409 putative catalytic residue [active] 1196325004410 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 1196325004411 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1196325004412 Cytochrome c; Region: Cytochrom_C; cl11414 1196325004413 Cytochrome c [Energy production and conversion]; Region: COG3258 1196325004414 Cytochrome c; Region: Cytochrom_C; pfam00034 1196325004415 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1196325004416 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1196325004417 active site 1196325004418 tetramer interface; other site 1196325004419 heat shock protein HtpX; Provisional; Region: PRK05457 1196325004420 aminotransferase AlaT; Validated; Region: PRK09265 1196325004421 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 1196325004422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325004423 homodimer interface [polypeptide binding]; other site 1196325004424 catalytic residue [active] 1196325004425 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1196325004426 SelR domain; Region: SelR; pfam01641 1196325004427 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 1196325004428 catalytic residues [active] 1196325004429 dimer interface [polypeptide binding]; other site 1196325004430 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 1196325004431 dimer interface [polypeptide binding]; other site 1196325004432 phosphorylation site [posttranslational modification] 1196325004433 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 1196325004434 ATP binding site [chemical binding]; other site 1196325004435 Mg2+ binding site [ion binding]; other site 1196325004436 G-X-G motif; other site 1196325004437 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196325004438 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 1196325004439 active site 1196325004440 phosphorylation site [posttranslational modification] 1196325004441 intermolecular recognition site; other site 1196325004442 dimerization interface [polypeptide binding]; other site 1196325004443 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1196325004444 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 1196325004445 Walker A motif; other site 1196325004446 ATP binding site [chemical binding]; other site 1196325004447 Walker B motif; other site 1196325004448 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1196325004449 GAF domain; Region: GAF_2; pfam13185 1196325004450 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 1196325004451 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1196325004452 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1196325004453 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1196325004454 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1196325004455 RHS Repeat; Region: RHS_repeat; pfam05593 1196325004456 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1196325004457 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1196325004458 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1196325004459 PapC N-terminal domain; Region: PapC_N; pfam13954 1196325004460 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1196325004461 PapC C-terminal domain; Region: PapC_C; pfam13953 1196325004462 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1196325004463 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1196325004464 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1196325004465 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1196325004466 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1196325004467 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1196325004468 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1196325004469 active site 1196325004470 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1196325004471 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196325004472 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 1196325004473 putative C-terminal domain interface [polypeptide binding]; other site 1196325004474 putative GSH binding site (G-site) [chemical binding]; other site 1196325004475 putative dimer interface [polypeptide binding]; other site 1196325004476 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1196325004477 putative N-terminal domain interface [polypeptide binding]; other site 1196325004478 putative dimer interface [polypeptide binding]; other site 1196325004479 putative substrate binding pocket (H-site) [chemical binding]; other site 1196325004480 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325004481 Walker A/P-loop; other site 1196325004482 ATP binding site [chemical binding]; other site 1196325004483 Q-loop/lid; other site 1196325004484 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1196325004485 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1196325004486 catalytic triad [active] 1196325004487 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1196325004488 Cytochrome c; Region: Cytochrom_C; pfam00034 1196325004489 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 1196325004490 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325004491 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325004492 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 1196325004493 putative effector binding pocket; other site 1196325004494 dimerization interface [polypeptide binding]; other site 1196325004495 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 1196325004496 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1196325004497 RmuC family; Region: RmuC; pfam02646 1196325004498 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1196325004499 Na binding site [ion binding]; other site 1196325004500 PAS domain; Region: PAS; smart00091 1196325004501 PAS fold; Region: PAS_7; pfam12860 1196325004502 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325004503 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 1196325004504 dimer interface [polypeptide binding]; other site 1196325004505 phosphorylation site [posttranslational modification] 1196325004506 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 1196325004507 ATP binding site [chemical binding]; other site 1196325004508 Mg2+ binding site [ion binding]; other site 1196325004509 G-X-G motif; other site 1196325004510 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196325004511 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 1196325004512 active site 1196325004513 phosphorylation site [posttranslational modification] 1196325004514 intermolecular recognition site; other site 1196325004515 dimerization interface [polypeptide binding]; other site 1196325004516 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196325004517 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 1196325004518 putative substrate translocation pore; other site 1196325004519 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1196325004520 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325004521 DNA-binding site [nucleotide binding]; DNA binding site 1196325004522 UTRA domain; Region: UTRA; pfam07702 1196325004523 benzoate transport; Region: 2A0115; TIGR00895 1196325004524 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 1196325004525 putative substrate translocation pore; other site 1196325004526 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1196325004527 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 1196325004528 active site 1196325004529 H+ Antiporter protein; Region: 2A0121; TIGR00900 1196325004530 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1196325004531 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1196325004532 putative acyl-acceptor binding pocket; other site 1196325004533 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1196325004534 Mini-ykkC RNA motif; T1E_5787 1196325004535 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1196325004536 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 1196325004537 Walker A motif; other site 1196325004538 ATP binding site [chemical binding]; other site 1196325004539 Walker B motif; other site 1196325004540 arginine finger; other site 1196325004541 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196325004542 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 1196325004543 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1196325004544 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1196325004545 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 1196325004546 tetramer interface [polypeptide binding]; other site 1196325004547 TPP-binding site [chemical binding]; other site 1196325004548 heterodimer interface [polypeptide binding]; other site 1196325004549 phosphorylation loop region [posttranslational modification] 1196325004550 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1196325004551 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 1196325004552 alpha subunit interface [polypeptide binding]; other site 1196325004553 TPP binding site [chemical binding]; other site 1196325004554 heterodimer interface [polypeptide binding]; other site 1196325004555 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1196325004556 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 1196325004557 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 1196325004558 E3 interaction surface; other site 1196325004559 lipoyl attachment site [posttranslational modification]; other site 1196325004560 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 1196325004561 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1196325004562 putative NAD(P) binding site [chemical binding]; other site 1196325004563 catalytic Zn binding site [ion binding]; other site 1196325004564 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1196325004565 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1196325004566 Peptidase C13 family; Region: Peptidase_C13; pfam01650 1196325004567 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1196325004568 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1196325004569 NAD binding site [chemical binding]; other site 1196325004570 active site 1196325004571 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 1196325004572 aromatic acid decarboxylase; Validated; Region: PRK05920 1196325004573 Flavoprotein; Region: Flavoprotein; pfam02441 1196325004574 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1196325004575 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1196325004576 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1196325004577 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1196325004578 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 1196325004579 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 1196325004580 dimer interface [polypeptide binding]; other site 1196325004581 active site 1196325004582 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 1196325004583 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1196325004584 Walker A motif; other site 1196325004585 ATP binding site [chemical binding]; other site 1196325004586 Walker B motif; other site 1196325004587 arginine finger; other site 1196325004588 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196325004589 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 1196325004590 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 1196325004591 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 1196325004592 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 1196325004593 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1196325004594 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1196325004595 HopJ type III effector protein; Region: HopJ; pfam08888 1196325004596 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 1196325004597 dihydromonapterin reductase; Provisional; Region: PRK06483 1196325004598 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325004599 NAD(P) binding site [chemical binding]; other site 1196325004600 active site 1196325004601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 1196325004602 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1196325004603 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1196325004604 DNA binding residues [nucleotide binding] 1196325004605 B12 binding domain; Region: B12-binding_2; pfam02607 1196325004606 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 1196325004607 PAS domain; Region: PAS_9; pfam13426 1196325004608 putative active site [active] 1196325004609 heme pocket [chemical binding]; other site 1196325004610 flavodoxin; Provisional; Region: PRK05723 1196325004611 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325004612 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325004613 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1196325004614 putative dimerization interface [polypeptide binding]; other site 1196325004615 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1196325004616 LrgB-like family; Region: LrgB; pfam04172 1196325004617 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196325004618 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1196325004619 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 1196325004620 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 1196325004621 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1196325004622 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1196325004623 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1196325004624 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1196325004625 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1196325004626 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1196325004627 NAD binding site [chemical binding]; other site 1196325004628 Phe binding site; other site 1196325004629 YebG protein; Region: YebG; pfam07130 1196325004630 Predicted membrane protein [Function unknown]; Region: COG3223 1196325004631 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1196325004632 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; cl00250 1196325004633 30S subunit binding site; other site 1196325004634 Protein of unknown function (DUF3649); Region: DUF3649; pfam12365 1196325004635 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1196325004636 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1196325004637 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1196325004638 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 1196325004639 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 1196325004640 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325004641 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 1196325004642 DNA binding residues [nucleotide binding] 1196325004643 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1196325004644 FecR protein; Region: FecR; pfam04773 1196325004645 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 1196325004646 N-terminal plug; other site 1196325004647 ligand-binding site [chemical binding]; other site 1196325004648 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 1196325004649 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325004650 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196325004651 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325004652 EamA-like transporter family; Region: EamA; pfam00892 1196325004653 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 1196325004654 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1196325004655 dimerization interface [polypeptide binding]; other site 1196325004656 ligand binding site [chemical binding]; other site 1196325004657 NADP binding site [chemical binding]; other site 1196325004658 catalytic site [active] 1196325004659 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325004660 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325004661 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 1196325004662 putative effector binding pocket; other site 1196325004663 dimerization interface [polypeptide binding]; other site 1196325004664 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1196325004665 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1196325004666 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1196325004667 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1196325004668 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1196325004669 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325004670 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325004671 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 1196325004672 putative regulator PrlF; Provisional; Region: PRK09974 1196325004673 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1196325004674 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 1196325004675 Ligand Binding Site [chemical binding]; other site 1196325004676 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325004677 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325004678 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_1; cd08460 1196325004679 putative substrate binding pocket [chemical binding]; other site 1196325004680 putative dimerization interface [polypeptide binding]; other site 1196325004681 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1196325004682 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 1196325004683 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1196325004684 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325004685 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325004686 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1196325004687 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1196325004688 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1196325004689 Sulfatase; Region: Sulfatase; pfam00884 1196325004690 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1196325004691 ZIP Zinc transporter; Region: Zip; pfam02535 1196325004692 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1196325004693 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 1196325004694 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1196325004695 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1196325004696 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 1196325004697 Cupin domain; Region: Cupin_2; cl17218 1196325004698 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 1196325004699 putative substrate translocation pore; other site 1196325004700 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1196325004701 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1196325004702 Tetramer interface [polypeptide binding]; other site 1196325004703 active site 1196325004704 FMN-binding site [chemical binding]; other site 1196325004705 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196325004706 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 1196325004707 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1196325004708 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 1196325004709 non-specific DNA binding site [nucleotide binding]; other site 1196325004710 salt bridge; other site 1196325004711 sequence-specific DNA binding site [nucleotide binding]; other site 1196325004712 Cupin domain; Region: Cupin_2; pfam07883 1196325004713 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1196325004714 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 1196325004715 putative catalytic residue [active] 1196325004716 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 1196325004717 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1196325004718 putative NAD(P) binding site [chemical binding]; other site 1196325004719 active site 1196325004720 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196325004721 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325004722 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 1196325004723 acyl-CoA synthetase; Provisional; Region: PRK12583 1196325004724 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1196325004725 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1196325004726 acyl-activating enzyme (AAE) consensus motif; other site 1196325004727 putative AMP binding site [chemical binding]; other site 1196325004728 putative active site [active] 1196325004729 putative CoA binding site [chemical binding]; other site 1196325004730 quinohemoprotein amine dehydrogenase, beta subunit; Region: QH_beta; TIGR03907 1196325004731 MutS domain II; Region: MutS_II; pfam05188 1196325004732 Quinohemoprotein amine dehydrogenase, gamma subunit; Region: QH-AmDH_gamma; pfam08992 1196325004733 quinohemoprotein amine dehydrogenase maturation protein; Region: quino_hemo_SAM; TIGR03906 1196325004734 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 1196325004735 FeS/SAM binding site; other site 1196325004736 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1196325004737 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 1196325004738 Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; Region: Dehyd-heme_bind; pfam09098 1196325004739 Bacterial Ig-like domain (DUF1927); Region: DUF1927; pfam09099 1196325004740 Domain of unknown function (DUF1928); Region: DUF1928; pfam09100 1196325004741 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1196325004742 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1196325004743 NAD(P) binding site [chemical binding]; other site 1196325004744 catalytic residues [active] 1196325004745 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1196325004746 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1196325004747 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1196325004748 active site 1196325004749 catalytic residues [active] 1196325004750 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1196325004751 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1196325004752 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325004753 Walker A/P-loop; other site 1196325004754 ATP binding site [chemical binding]; other site 1196325004755 Q-loop/lid; other site 1196325004756 ABC transporter signature motif; other site 1196325004757 Walker B; other site 1196325004758 D-loop; other site 1196325004759 H-loop/switch region; other site 1196325004760 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1196325004761 GAF domain; Region: GAF; pfam01590 1196325004762 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 1196325004763 putative active site [active] 1196325004764 heme pocket [chemical binding]; other site 1196325004765 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 1196325004766 ATP binding site [chemical binding]; other site 1196325004767 Walker A motif; other site 1196325004768 Walker B motif; other site 1196325004769 arginine finger; other site 1196325004770 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1196325004771 DNA-binding interface [nucleotide binding]; DNA binding site 1196325004772 Isrk Hfq bnding RNA; T1E_5786 1196325004773 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 1196325004774 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 1196325004775 curli assembly protein CsgE; Provisional; Region: PRK10386 1196325004776 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1196325004777 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1196325004778 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1196325004779 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1196325004780 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1196325004781 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1196325004782 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 1196325004783 TPR motif; other site 1196325004784 binding surface 1196325004785 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1196325004786 Secretin and TonB N terminus short domain; Region: STN; smart00965 1196325004787 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1196325004788 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1196325004789 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1196325004790 Type II/IV secretion system protein; Region: T2SE; pfam00437 1196325004791 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 1196325004792 Walker A motif; other site 1196325004793 ATP binding site [chemical binding]; other site 1196325004794 Walker B motif; other site 1196325004795 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325004796 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 1196325004797 active site 1196325004798 phosphorylation site [posttranslational modification] 1196325004799 intermolecular recognition site; other site 1196325004800 dimerization interface [polypeptide binding]; other site 1196325004801 SurA N-terminal domain; Region: SurA_N_3; cl07813 1196325004802 Cytochrome c; Region: Cytochrom_C; pfam00034 1196325004803 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1196325004804 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 1196325004805 ligand binding site [chemical binding]; other site 1196325004806 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1196325004807 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 1196325004808 Cu(I) binding site [ion binding]; other site 1196325004809 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1196325004810 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 1196325004811 Cu(I) binding site [ion binding]; other site 1196325004812 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1196325004813 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1196325004814 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1196325004815 FixH; Region: FixH; pfam05751 1196325004816 YtkA-like; Region: YtkA; pfam13115 1196325004817 DEAD/H associated; Region: DEAD_assoc; pfam08494 1196325004818 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1196325004819 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 1196325004820 active site 1196325004821 FMN binding site [chemical binding]; other site 1196325004822 substrate binding site [chemical binding]; other site 1196325004823 3Fe-4S cluster binding site [ion binding]; other site 1196325004824 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1196325004825 Spore germination protein; Region: Spore_permease; cl17796 1196325004826 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1196325004827 Transglycosylase; Region: Transgly; pfam00912 1196325004828 Predicted transcriptional regulators [Transcription]; Region: COG1695 1196325004829 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1196325004830 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1196325004831 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 1196325004832 FAD binding pocket [chemical binding]; other site 1196325004833 FAD binding motif [chemical binding]; other site 1196325004834 phosphate binding motif [ion binding]; other site 1196325004835 NAD binding pocket [chemical binding]; other site 1196325004836 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 1196325004837 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1196325004838 GspL periplasmic domain; Region: GspL_C; cl14909 1196325004839 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1196325004840 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1196325004841 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1196325004842 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 1196325004843 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1196325004844 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 1196325004845 putative heme binding pocket [chemical binding]; other site 1196325004846 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1196325004847 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 1196325004848 DNA binding residues [nucleotide binding] 1196325004849 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196325004850 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325004851 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196325004852 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 1196325004853 active site 1196325004854 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1196325004855 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 1196325004856 FMN binding site [chemical binding]; other site 1196325004857 active site 1196325004858 catalytic residues [active] 1196325004859 substrate binding site [chemical binding]; other site 1196325004860 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1196325004861 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 1196325004862 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 1196325004863 Magnesium ion binding site [ion binding]; other site 1196325004864 flagellar motor protein MotD; Reviewed; Region: PRK09038 1196325004865 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1196325004866 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196325004867 ligand binding site [chemical binding]; other site 1196325004868 flagellar motor protein; Reviewed; Region: motC; PRK09109 1196325004869 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1196325004870 CheB methylesterase; Region: CheB_methylest; pfam01339 1196325004871 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1196325004872 VirB7 interaction site; other site 1196325004873 conjugal transfer protein TrbF; Provisional; Region: PRK13872 1196325004874 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 1196325004875 metal ion-dependent adhesion site (MIDAS); other site 1196325004876 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1196325004877 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 1196325004878 Walker A motif; other site 1196325004879 ATP binding site [chemical binding]; other site 1196325004880 Walker B motif; other site 1196325004881 arginine finger; other site 1196325004882 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196325004883 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1196325004884 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1196325004885 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 1196325004886 ATP binding site [chemical binding]; other site 1196325004887 Mg2+ binding site [ion binding]; other site 1196325004888 G-X-G motif; other site 1196325004889 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 1196325004890 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1196325004891 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1196325004892 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1196325004893 type II secretion system protein F; Region: GspF; TIGR02120 1196325004894 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1196325004895 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1196325004896 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1196325004897 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 1196325004898 Walker A motif; other site 1196325004899 ATP binding site [chemical binding]; other site 1196325004900 Walker B motif; other site 1196325004901 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1196325004902 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1196325004903 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1196325004904 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1196325004905 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1196325004906 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 1196325004907 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 1196325004908 active site 1196325004909 dimer interface [polypeptide binding]; other site 1196325004910 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 1196325004911 Ligand Binding Site [chemical binding]; other site 1196325004912 Molecular Tunnel; other site 1196325004913 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 1196325004914 rod shape-determining protein MreC; Provisional; Region: PRK13922 1196325004915 rod shape-determining protein MreC; Region: MreC; pfam04085 1196325004916 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 1196325004917 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 1196325004918 rod shape-determining protein MreB; Provisional; Region: PRK13927 1196325004919 MreB and similar proteins; Region: MreB_like; cd10225 1196325004920 nucleotide binding site [chemical binding]; other site 1196325004921 Mg binding site [ion binding]; other site 1196325004922 putative protofilament interaction site [polypeptide binding]; other site 1196325004923 RodZ interaction site [polypeptide binding]; other site 1196325004924 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1196325004925 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1196325004926 Amidase; Region: Amidase; cl11426 1196325004927 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 1196325004928 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 1196325004929 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1196325004930 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 1196325004931 iron-sulfur cluster [ion binding]; other site 1196325004932 [2Fe-2S] cluster binding site [ion binding]; other site 1196325004933 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 1196325004934 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 1196325004935 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1196325004936 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1196325004937 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 1196325004938 homodimer interface [polypeptide binding]; other site 1196325004939 substrate-cofactor binding pocket; other site 1196325004940 catalytic residue [active] 1196325004941 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1196325004942 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325004943 Walker A/P-loop; other site 1196325004944 ATP binding site [chemical binding]; other site 1196325004945 Q-loop/lid; other site 1196325004946 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196325004947 ABC transporter signature motif; other site 1196325004948 Walker B; other site 1196325004949 D-loop; other site 1196325004950 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 1196325004951 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196325004952 Walker A motif; other site 1196325004953 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1196325004954 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1196325004955 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1196325004956 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1196325004957 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1196325004958 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1196325004959 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 1196325004960 Walker A motif; other site 1196325004961 ATP binding site [chemical binding]; other site 1196325004962 Walker B motif; other site 1196325004963 arginine finger; other site 1196325004964 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1196325004965 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325004966 DNA-binding site [nucleotide binding]; DNA binding site 1196325004967 FCD domain; Region: FCD; pfam07729 1196325004968 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1196325004969 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 1196325004970 FMN-binding pocket [chemical binding]; other site 1196325004971 flavin binding motif; other site 1196325004972 phosphate binding motif [ion binding]; other site 1196325004973 beta-alpha-beta structure motif; other site 1196325004974 NAD binding pocket [chemical binding]; other site 1196325004975 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1196325004976 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 1196325004977 catalytic loop [active] 1196325004978 iron binding site [ion binding]; other site 1196325004979 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 1196325004980 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1196325004981 iron-sulfur cluster [ion binding]; other site 1196325004982 [2Fe-2S] cluster binding site [ion binding]; other site 1196325004983 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 1196325004984 alpha subunit interface [polypeptide binding]; other site 1196325004985 active site 1196325004986 substrate binding site [chemical binding]; other site 1196325004987 Fe binding site [ion binding]; other site 1196325004988 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1196325004989 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1196325004990 Walker A/P-loop; other site 1196325004991 ATP binding site [chemical binding]; other site 1196325004992 Q-loop/lid; other site 1196325004993 ABC transporter signature motif; other site 1196325004994 Walker B; other site 1196325004995 D-loop; other site 1196325004996 H-loop/switch region; other site 1196325004997 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1196325004998 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1196325004999 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 1196325005000 enoyl-CoA hydratase; Provisional; Region: PRK06688 1196325005001 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 1196325005002 substrate binding site [chemical binding]; other site 1196325005003 oxyanion hole (OAH) forming residues; other site 1196325005004 trimer interface [polypeptide binding]; other site 1196325005005 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 1196325005006 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325005007 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1196325005008 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 1196325005009 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 1196325005010 active site 1196325005011 phosphorylation site [posttranslational modification] 1196325005012 intermolecular recognition site; other site 1196325005013 dimerization interface [polypeptide binding]; other site 1196325005014 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 1196325005015 DNA binding site [nucleotide binding] 1196325005016 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325005017 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 1196325005018 substrate binding pocket [chemical binding]; other site 1196325005019 membrane-bound complex binding site; other site 1196325005020 hinge residues; other site 1196325005021 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325005022 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 1196325005023 dimer interface [polypeptide binding]; other site 1196325005024 phosphorylation site [posttranslational modification] 1196325005025 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 1196325005026 ATP binding site [chemical binding]; other site 1196325005027 Mg2+ binding site [ion binding]; other site 1196325005028 G-X-G motif; other site 1196325005029 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325005030 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 1196325005031 active site 1196325005032 phosphorylation site [posttranslational modification] 1196325005033 intermolecular recognition site; other site 1196325005034 dimerization interface [polypeptide binding]; other site 1196325005035 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 1196325005036 S-methylmethionine transporter; Provisional; Region: PRK11387 1196325005037 enoyl-CoA hydratase; Provisional; Region: PRK06688 1196325005038 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 1196325005039 substrate binding site [chemical binding]; other site 1196325005040 oxyanion hole (OAH) forming residues; other site 1196325005041 trimer interface [polypeptide binding]; other site 1196325005042 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196325005043 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196325005044 active site 1196325005045 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1196325005046 CoA binding domain; Region: CoA_binding_2; pfam13380 1196325005047 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1196325005048 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1196325005049 hypothetical protein; Provisional; Region: PRK07524 1196325005050 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1196325005051 PYR/PP interface [polypeptide binding]; other site 1196325005052 dimer interface [polypeptide binding]; other site 1196325005053 TPP binding site [chemical binding]; other site 1196325005054 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1196325005055 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 1196325005056 TPP-binding site [chemical binding]; other site 1196325005057 alanine racemase; Reviewed; Region: PRK13340 1196325005058 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2; Region: PLPDE_III_AR2; cd06826 1196325005059 active site 1196325005060 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1196325005061 dimer interface [polypeptide binding]; other site 1196325005062 substrate binding site [chemical binding]; other site 1196325005063 catalytic residues [active] 1196325005064 aspartate aminotransferase; Provisional; Region: PRK05764 1196325005065 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 1196325005066 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325005067 homodimer interface [polypeptide binding]; other site 1196325005068 catalytic residue [active] 1196325005069 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1196325005070 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1196325005071 NAD binding site [chemical binding]; other site 1196325005072 catalytic residues [active] 1196325005073 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1196325005074 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1196325005075 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1196325005076 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1196325005077 hypothetical protein; Provisional; Region: PRK07036 1196325005078 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 1196325005079 inhibitor-cofactor binding pocket; inhibition site 1196325005080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325005081 catalytic residue [active] 1196325005082 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196325005083 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 1196325005084 DNA binding residues [nucleotide binding] 1196325005085 dimerization interface [polypeptide binding]; other site 1196325005086 ethanolamine utilization protein EutH; Provisional; Region: PRK15086 1196325005087 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196325005088 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 1196325005089 DNA binding residues [nucleotide binding] 1196325005090 dimerization interface [polypeptide binding]; other site 1196325005091 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 1196325005092 FAD binding domain; Region: FAD_binding_4; pfam01565 1196325005093 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1196325005094 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1196325005095 classical (c) SDRs; Region: SDR_c; cd05233 1196325005096 NAD(P) binding site [chemical binding]; other site 1196325005097 active site 1196325005098 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1196325005099 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325005100 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 1196325005101 dimerization interface [polypeptide binding]; other site 1196325005102 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1196325005103 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 1196325005104 octamer interface [polypeptide binding]; other site 1196325005105 active site 1196325005106 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 1196325005107 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1196325005108 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 1196325005109 dimer interface [polypeptide binding]; other site 1196325005110 active site 1196325005111 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325005112 Coenzyme A binding pocket [chemical binding]; other site 1196325005113 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 1196325005114 PAS domain; Region: PAS_9; pfam13426 1196325005115 putative active site [active] 1196325005116 heme pocket [chemical binding]; other site 1196325005117 PAS fold; Region: PAS_4; pfam08448 1196325005118 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 1196325005119 putative active site [active] 1196325005120 heme pocket [chemical binding]; other site 1196325005121 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325005122 metal binding site [ion binding]; metal-binding site 1196325005123 active site 1196325005124 I-site; other site 1196325005125 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 1196325005126 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 1196325005127 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1196325005128 active site 1196325005129 catalytic tetrad [active] 1196325005130 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1196325005131 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325005132 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325005133 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_2; cd08464 1196325005134 putative substrate binding pocket [chemical binding]; other site 1196325005135 putative dimerization interface [polypeptide binding]; other site 1196325005136 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1196325005137 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1196325005138 dimer interface [polypeptide binding]; other site 1196325005139 active site 1196325005140 heme binding site [chemical binding]; other site 1196325005141 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1196325005142 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1196325005143 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1196325005144 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 1196325005145 active site 1196325005146 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 1196325005147 metabolite-proton symporter; Region: 2A0106; TIGR00883 1196325005148 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 1196325005149 putative substrate translocation pore; other site 1196325005150 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1196325005151 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1196325005152 conserved cys residue [active] 1196325005153 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325005154 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 1196325005155 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 1196325005156 domain interface [polypeptide binding]; other site 1196325005157 putative active site [active] 1196325005158 catalytic site [active] 1196325005159 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 1196325005160 domain interface [polypeptide binding]; other site 1196325005161 putative active site [active] 1196325005162 catalytic site [active] 1196325005163 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325005164 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325005165 metal binding site [ion binding]; metal-binding site 1196325005166 active site 1196325005167 I-site; other site 1196325005168 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1196325005169 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1196325005170 Predicted membrane protein [Function unknown]; Region: COG2855 1196325005171 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 1196325005172 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325005173 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325005174 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 1196325005175 putative dimerization interface [polypeptide binding]; other site 1196325005176 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 1196325005177 putative active site [active] 1196325005178 putative catalytic site [active] 1196325005179 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1196325005180 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196325005181 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325005182 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 1196325005183 putative substrate translocation pore; other site 1196325005184 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 1196325005185 putative FMN binding site [chemical binding]; other site 1196325005186 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325005187 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1196325005188 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1196325005189 Na binding site [ion binding]; other site 1196325005190 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196325005191 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 1196325005192 putative DNA binding site [nucleotide binding]; other site 1196325005193 putative Zn2+ binding site [ion binding]; other site 1196325005194 AsnC family; Region: AsnC_trans_reg; pfam01037 1196325005195 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196325005196 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196325005197 PAS fold; Region: PAS_4; pfam08448 1196325005198 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1196325005199 GAF domain; Region: GAF; pfam01590 1196325005200 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 1196325005201 dimer interface [polypeptide binding]; other site 1196325005202 phosphorylation site [posttranslational modification] 1196325005203 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 1196325005204 ATP binding site [chemical binding]; other site 1196325005205 Mg2+ binding site [ion binding]; other site 1196325005206 G-X-G motif; other site 1196325005207 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325005208 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 1196325005209 active site 1196325005210 phosphorylation site [posttranslational modification] 1196325005211 intermolecular recognition site; other site 1196325005212 dimerization interface [polypeptide binding]; other site 1196325005213 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 1196325005214 nudix motif; other site 1196325005215 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1196325005216 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325005217 DNA-binding site [nucleotide binding]; DNA binding site 1196325005218 FCD domain; Region: FCD; pfam07729 1196325005219 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1196325005220 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1196325005221 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1196325005222 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 1196325005223 NAD(P) binding site [chemical binding]; other site 1196325005224 catalytic residues [active] 1196325005225 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1196325005226 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1196325005227 Amino acid synthesis; Region: AA_synth; pfam06684 1196325005228 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1196325005229 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1196325005230 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1196325005231 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1196325005232 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1196325005233 Na binding site [ion binding]; other site 1196325005234 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1196325005235 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 1196325005236 dimerization interface [polypeptide binding]; other site 1196325005237 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325005238 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325005239 dimer interface [polypeptide binding]; other site 1196325005240 putative CheW interface [polypeptide binding]; other site 1196325005241 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1196325005242 Predicted transcriptional regulator [Transcription]; Region: COG1959 1196325005243 Transcriptional regulator; Region: Rrf2; pfam02082 1196325005244 Cupin; Region: Cupin_6; pfam12852 1196325005245 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196325005246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325005247 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1196325005248 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1196325005249 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196325005250 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196325005251 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1196325005252 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1196325005253 Walker A/P-loop; other site 1196325005254 ATP binding site [chemical binding]; other site 1196325005255 Q-loop/lid; other site 1196325005256 ABC transporter signature motif; other site 1196325005257 Walker B; other site 1196325005258 D-loop; other site 1196325005259 H-loop/switch region; other site 1196325005260 NMT1-like family; Region: NMT1_2; pfam13379 1196325005261 NMT1/THI5 like; Region: NMT1; pfam09084 1196325005262 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1196325005263 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 1196325005264 dimer interface [polypeptide binding]; other site 1196325005265 conserved gate region; other site 1196325005266 putative PBP binding loops; other site 1196325005267 ABC-ATPase subunit interface; other site 1196325005268 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325005269 Coenzyme A binding pocket [chemical binding]; other site 1196325005270 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1196325005271 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1196325005272 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325005273 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325005274 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 1196325005275 dimerization interface [polypeptide binding]; other site 1196325005276 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1196325005277 Bacterial SH3 domain; Region: SH3_3; pfam08239 1196325005278 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325005279 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 1196325005280 dimer interface [polypeptide binding]; other site 1196325005281 BCCT family transporter; Region: BCCT; pfam02028 1196325005282 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1196325005283 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196325005284 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 1196325005285 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325005286 substrate binding pocket [chemical binding]; other site 1196325005287 membrane-bound complex binding site; other site 1196325005288 hinge residues; other site 1196325005289 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1196325005290 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1196325005291 Cytochrome c; Region: Cytochrom_C; pfam00034 1196325005292 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1196325005293 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1196325005294 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1196325005295 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1196325005296 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1196325005297 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1196325005298 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 1196325005299 catalytic loop [active] 1196325005300 iron binding site [ion binding]; other site 1196325005301 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1196325005302 YcaO domain protein; Region: TIGR03549 1196325005303 OsmC-like protein; Region: OsmC; pfam02566 1196325005304 YcaO-like family; Region: YcaO; pfam02624 1196325005305 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 1196325005306 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 1196325005307 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1196325005308 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1196325005309 Walker A/P-loop; other site 1196325005310 ATP binding site [chemical binding]; other site 1196325005311 Q-loop/lid; other site 1196325005312 ABC transporter signature motif; other site 1196325005313 Walker B; other site 1196325005314 D-loop; other site 1196325005315 H-loop/switch region; other site 1196325005316 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 1196325005317 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 1196325005318 dimer interface [polypeptide binding]; other site 1196325005319 conserved gate region; other site 1196325005320 ABC-ATPase subunit interface; other site 1196325005321 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1196325005322 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1196325005323 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 1196325005324 dimer interface [polypeptide binding]; other site 1196325005325 conserved gate region; other site 1196325005326 putative PBP binding loops; other site 1196325005327 ABC-ATPase subunit interface; other site 1196325005328 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1196325005329 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1196325005330 G1 box; other site 1196325005331 putative GEF interaction site [polypeptide binding]; other site 1196325005332 GTP/Mg2+ binding site [chemical binding]; other site 1196325005333 Switch I region; other site 1196325005334 G2 box; other site 1196325005335 G3 box; other site 1196325005336 Switch II region; other site 1196325005337 G4 box; other site 1196325005338 G5 box; other site 1196325005339 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 1196325005340 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1196325005341 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1196325005342 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1196325005343 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1196325005344 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1196325005345 SnoaL-like domain; Region: SnoaL_2; pfam12680 1196325005346 Helix-turn-helix domain; Region: HTH_18; pfam12833 1196325005347 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325005348 EamA-like transporter family; Region: EamA; cl17759 1196325005349 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1196325005350 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1196325005351 Walker A/P-loop; other site 1196325005352 ATP binding site [chemical binding]; other site 1196325005353 Q-loop/lid; other site 1196325005354 ABC transporter signature motif; other site 1196325005355 Walker B; other site 1196325005356 D-loop; other site 1196325005357 H-loop/switch region; other site 1196325005358 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1196325005359 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1196325005360 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1196325005361 Walker A/P-loop; other site 1196325005362 ATP binding site [chemical binding]; other site 1196325005363 Q-loop/lid; other site 1196325005364 ABC transporter signature motif; other site 1196325005365 Walker B; other site 1196325005366 D-loop; other site 1196325005367 H-loop/switch region; other site 1196325005368 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1196325005369 dipeptide transporter; Provisional; Region: PRK10913 1196325005370 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1196325005371 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 1196325005372 putative PBP binding loops; other site 1196325005373 dimer interface [polypeptide binding]; other site 1196325005374 ABC-ATPase subunit interface; other site 1196325005375 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1196325005376 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 1196325005377 dimer interface [polypeptide binding]; other site 1196325005378 conserved gate region; other site 1196325005379 putative PBP binding loops; other site 1196325005380 ABC-ATPase subunit interface; other site 1196325005381 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1196325005382 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1196325005383 peptide binding site [polypeptide binding]; other site 1196325005384 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 1196325005385 argininosuccinate synthase; Provisional; Region: PRK13820 1196325005386 ANP binding site [chemical binding]; other site 1196325005387 Substrate Binding Site II [chemical binding]; other site 1196325005388 Substrate Binding Site I [chemical binding]; other site 1196325005389 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196325005390 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 1196325005391 active site 1196325005392 phosphorylation site [posttranslational modification] 1196325005393 intermolecular recognition site; other site 1196325005394 dimerization interface [polypeptide binding]; other site 1196325005395 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 1196325005396 DNA binding residues [nucleotide binding] 1196325005397 dimerization interface [polypeptide binding]; other site 1196325005398 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1196325005399 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1196325005400 minor groove reading motif; other site 1196325005401 helix-hairpin-helix signature motif; other site 1196325005402 substrate binding pocket [chemical binding]; other site 1196325005403 active site 1196325005404 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1196325005405 electron transport complex, RnfABCDGE type, G subunit; Region: rnfG; TIGR01947 1196325005406 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1196325005407 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 1196325005408 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1196325005409 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1196325005410 active site 1196325005411 HIGH motif; other site 1196325005412 KMSKS motif; other site 1196325005413 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1196325005414 tRNA binding surface [nucleotide binding]; other site 1196325005415 anticodon binding site; other site 1196325005416 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 1196325005417 dimer interface [polypeptide binding]; other site 1196325005418 putative tRNA-binding site [nucleotide binding]; other site 1196325005419 antiporter inner membrane protein; Provisional; Region: PRK11670 1196325005420 Domain of unknown function DUF59; Region: DUF59; pfam01883 1196325005421 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 1196325005422 Walker A motif; other site 1196325005423 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 1196325005424 DNA-binding site [nucleotide binding]; DNA binding site 1196325005425 RNA-binding motif; other site 1196325005426 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1196325005427 trimer interface [polypeptide binding]; other site 1196325005428 active site 1196325005429 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1196325005430 putative active site [active] 1196325005431 putative metal binding site [ion binding]; other site 1196325005432 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1196325005433 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 1196325005434 ATP binding site [chemical binding]; other site 1196325005435 putative Mg++ binding site [ion binding]; other site 1196325005436 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 1196325005437 nucleotide binding region [chemical binding]; other site 1196325005438 ATP-binding site [chemical binding]; other site 1196325005439 DEAD/H associated; Region: DEAD_assoc; pfam08494 1196325005440 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1196325005441 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1196325005442 active site 1196325005443 Zn binding site [ion binding]; other site 1196325005444 ATP-dependent DNA ligase; Validated; Region: PRK09247 1196325005445 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 1196325005446 active site 1196325005447 DNA binding site [nucleotide binding] 1196325005448 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 1196325005449 DNA binding site [nucleotide binding] 1196325005450 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 1196325005451 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1196325005452 Penicillin amidase; Region: Penicil_amidase; pfam01804 1196325005453 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 1196325005454 active site 1196325005455 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 1196325005456 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325005457 DNA-binding site [nucleotide binding]; DNA binding site 1196325005458 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 1196325005459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325005460 homodimer interface [polypeptide binding]; other site 1196325005461 catalytic residue [active] 1196325005462 serine O-acetyltransferase; Region: cysE; TIGR01172 1196325005463 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 1196325005464 trimer interface [polypeptide binding]; other site 1196325005465 active site 1196325005466 substrate binding site [chemical binding]; other site 1196325005467 CoA binding site [chemical binding]; other site 1196325005468 alanine-tRNA ligase; Region: PLN02961 1196325005469 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 1196325005470 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196325005471 putative substrate translocation pore; other site 1196325005472 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1196325005473 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 1196325005474 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196325005475 catalytic residue [active] 1196325005476 SEC-C motif; Region: SEC-C; pfam02810 1196325005477 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 1196325005478 hypothetical protein; Provisional; Region: PRK00183 1196325005479 SEC-C motif; Region: SEC-C; pfam02810 1196325005480 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196325005481 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196325005482 ligand binding site [chemical binding]; other site 1196325005483 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196325005484 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196325005485 ligand binding site [chemical binding]; other site 1196325005486 Protein of unknown function (DUF1145); Region: DUF1145; pfam06611 1196325005487 Predicted integral membrane protein [Function unknown]; Region: COG5615 1196325005488 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 1196325005489 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1196325005490 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1196325005491 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1196325005492 Beta-lactamase; Region: Beta-lactamase; pfam00144 1196325005493 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196325005494 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196325005495 ligand binding site [chemical binding]; other site 1196325005496 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1196325005497 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1196325005498 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1196325005499 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1196325005500 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1196325005501 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1196325005502 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196325005503 Predicted membrane protein [Function unknown]; Region: COG3650 1196325005504 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1196325005505 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1196325005506 Walker A/P-loop; other site 1196325005507 ATP binding site [chemical binding]; other site 1196325005508 Q-loop/lid; other site 1196325005509 ABC transporter signature motif; other site 1196325005510 Walker B; other site 1196325005511 D-loop; other site 1196325005512 H-loop/switch region; other site 1196325005513 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1196325005514 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1196325005515 Walker A/P-loop; other site 1196325005516 ATP binding site [chemical binding]; other site 1196325005517 Q-loop/lid; other site 1196325005518 ABC transporter signature motif; other site 1196325005519 Walker B; other site 1196325005520 D-loop; other site 1196325005521 H-loop/switch region; other site 1196325005522 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1196325005523 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1196325005524 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 1196325005525 TM-ABC transporter signature motif; other site 1196325005526 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1196325005527 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 1196325005528 TM-ABC transporter signature motif; other site 1196325005529 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1196325005530 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 1196325005531 dimerization interface [polypeptide binding]; other site 1196325005532 ligand binding site [chemical binding]; other site 1196325005533 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 1196325005534 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1196325005535 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1196325005536 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325005537 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325005538 metal binding site [ion binding]; metal-binding site 1196325005539 active site 1196325005540 I-site; other site 1196325005541 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 1196325005542 ATP-dependent helicase HepA; Validated; Region: PRK04914 1196325005543 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 1196325005544 ATP binding site [chemical binding]; other site 1196325005545 putative Mg++ binding site [ion binding]; other site 1196325005546 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 1196325005547 nucleotide binding region [chemical binding]; other site 1196325005548 ATP-binding site [chemical binding]; other site 1196325005549 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1196325005550 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1196325005551 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1196325005552 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325005553 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325005554 Protein of unknown function (DUF2025); Region: DUF2025; pfam09634 1196325005555 CHASE4 domain; Region: CHASE4; pfam05228 1196325005556 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 1196325005557 PAS domain; Region: PAS_9; pfam13426 1196325005558 putative active site [active] 1196325005559 heme pocket [chemical binding]; other site 1196325005560 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325005561 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325005562 metal binding site [ion binding]; metal-binding site 1196325005563 active site 1196325005564 I-site; other site 1196325005565 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 1196325005566 CHASE4 domain; Region: CHASE4; cl01308 1196325005567 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 1196325005568 MASE2 domain; Region: MASE2; pfam05230 1196325005569 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325005570 metal binding site [ion binding]; metal-binding site 1196325005571 active site 1196325005572 I-site; other site 1196325005573 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1196325005574 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325005575 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1196325005576 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1196325005577 peptide binding site [polypeptide binding]; other site 1196325005578 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1196325005579 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1196325005580 peptide binding site [polypeptide binding]; other site 1196325005581 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1196325005582 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325005583 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 1196325005584 ATP binding site [chemical binding]; other site 1196325005585 G-X-G motif; other site 1196325005586 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1196325005587 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 1196325005588 active site 1196325005589 phosphorylation site [posttranslational modification] 1196325005590 intermolecular recognition site; other site 1196325005591 dimerization interface [polypeptide binding]; other site 1196325005592 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196325005593 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1196325005594 Beta-lactamase; Region: Beta-lactamase; pfam00144 1196325005595 YceI-like domain; Region: YceI; pfam04264 1196325005596 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1196325005597 PLD-like domain; Region: PLDc_2; pfam13091 1196325005598 putative active site [active] 1196325005599 catalytic site [active] 1196325005600 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1196325005601 PLD-like domain; Region: PLDc_2; pfam13091 1196325005602 putative active site [active] 1196325005603 catalytic site [active] 1196325005604 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1196325005605 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1196325005606 conserved cys residue [active] 1196325005607 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 1196325005608 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1196325005609 Coenzyme A binding pocket [chemical binding]; other site 1196325005610 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1196325005611 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 1196325005612 putative active site [active] 1196325005613 catalytic triad [active] 1196325005614 putative dimer interface [polypeptide binding]; other site 1196325005615 putative fumarate hydratase; Provisional; Region: PRK15392 1196325005616 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1196325005617 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1196325005618 hypothetical protein; Provisional; Region: PRK05713 1196325005619 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 1196325005620 catalytic loop [active] 1196325005621 iron binding site [ion binding]; other site 1196325005622 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible...; Region: FNR_N-term_Iron_sulfur_binding; cd06194 1196325005623 FAD binding pocket [chemical binding]; other site 1196325005624 FAD binding motif [chemical binding]; other site 1196325005625 phosphate binding motif [ion binding]; other site 1196325005626 beta-alpha-beta structure motif; other site 1196325005627 NAD binding pocket [chemical binding]; other site 1196325005628 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 1196325005629 active site 1196325005630 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196325005631 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 1196325005632 active site 1196325005633 phosphorylation site [posttranslational modification] 1196325005634 intermolecular recognition site; other site 1196325005635 dimerization interface [polypeptide binding]; other site 1196325005636 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 1196325005637 DNA binding site [nucleotide binding] 1196325005638 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325005639 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 1196325005640 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 1196325005641 dimer interface [polypeptide binding]; other site 1196325005642 phosphorylation site [posttranslational modification] 1196325005643 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 1196325005644 ATP binding site [chemical binding]; other site 1196325005645 Mg2+ binding site [ion binding]; other site 1196325005646 G-X-G motif; other site 1196325005647 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1196325005648 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 1196325005649 S-adenosylmethionine binding site [chemical binding]; other site 1196325005650 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1196325005651 multidrug efflux protein; Reviewed; Region: PRK09579 1196325005652 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1196325005653 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325005654 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325005655 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 1196325005656 Imelysin; Region: Peptidase_M75; cl09159 1196325005657 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1196325005658 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 1196325005659 Imelysin; Region: Peptidase_M75; cl09159 1196325005660 biofilm formation regulator HmsP; Provisional; Region: PRK11829 1196325005661 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325005662 metal binding site [ion binding]; metal-binding site 1196325005663 active site 1196325005664 I-site; other site 1196325005665 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 1196325005666 superoxide dismutase; Provisional; Region: PRK10543 1196325005667 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1196325005668 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1196325005669 Lysine efflux permease [General function prediction only]; Region: COG1279 1196325005670 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1196325005671 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325005672 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 1196325005673 dimerization interface [polypeptide binding]; other site 1196325005674 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1196325005675 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325005676 NAD(P) binding site [chemical binding]; other site 1196325005677 active site 1196325005678 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1196325005679 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 1196325005680 phosphate binding site [ion binding]; other site 1196325005681 elongation factor Tu; Reviewed; Region: PRK00049 1196325005682 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1196325005683 G1 box; other site 1196325005684 GEF interaction site [polypeptide binding]; other site 1196325005685 GTP/Mg2+ binding site [chemical binding]; other site 1196325005686 Switch I region; other site 1196325005687 G2 box; other site 1196325005688 G3 box; other site 1196325005689 Switch II region; other site 1196325005690 G4 box; other site 1196325005691 G5 box; other site 1196325005692 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 1196325005693 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 1196325005694 Antibiotic Binding Site [chemical binding]; other site 1196325005695 elongation factor G; Reviewed; Region: PRK00007 1196325005696 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1196325005697 G1 box; other site 1196325005698 putative GEF interaction site [polypeptide binding]; other site 1196325005699 GTP/Mg2+ binding site [chemical binding]; other site 1196325005700 Switch I region; other site 1196325005701 G2 box; other site 1196325005702 G3 box; other site 1196325005703 Switch II region; other site 1196325005704 G4 box; other site 1196325005705 G5 box; other site 1196325005706 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 1196325005707 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 1196325005708 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 1196325005709 30S ribosomal protein S7; Validated; Region: PRK05302 1196325005710 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 1196325005711 S17 interaction site [polypeptide binding]; other site 1196325005712 S8 interaction site; other site 1196325005713 16S rRNA interaction site [nucleotide binding]; other site 1196325005714 streptomycin interaction site [chemical binding]; other site 1196325005715 23S rRNA interaction site [nucleotide binding]; other site 1196325005716 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1196325005717 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1196325005718 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1196325005719 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1196325005720 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1196325005721 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1196325005722 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1196325005723 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1196325005724 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1196325005725 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1196325005726 DNA binding site [nucleotide binding] 1196325005727 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1196325005728 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1196325005729 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 1196325005730 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1196325005731 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 1196325005732 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1196325005733 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 1196325005734 RPB3 interaction site [polypeptide binding]; other site 1196325005735 RPB1 interaction site [polypeptide binding]; other site 1196325005736 RPB11 interaction site [polypeptide binding]; other site 1196325005737 RPB10 interaction site [polypeptide binding]; other site 1196325005738 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 1196325005739 core dimer interface [polypeptide binding]; other site 1196325005740 peripheral dimer interface [polypeptide binding]; other site 1196325005741 L10 interface [polypeptide binding]; other site 1196325005742 L11 interface [polypeptide binding]; other site 1196325005743 putative EF-Tu interaction site [polypeptide binding]; other site 1196325005744 putative EF-G interaction site [polypeptide binding]; other site 1196325005745 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 1196325005746 23S rRNA interface [nucleotide binding]; other site 1196325005747 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1196325005748 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 1196325005749 mRNA/rRNA interface [nucleotide binding]; other site 1196325005750 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1196325005751 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 1196325005752 23S rRNA interface [nucleotide binding]; other site 1196325005753 L7/L12 interface [polypeptide binding]; other site 1196325005754 putative thiostrepton binding site; other site 1196325005755 L25 interface [polypeptide binding]; other site 1196325005756 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 1196325005757 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1196325005758 putative homodimer interface [polypeptide binding]; other site 1196325005759 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1196325005760 heterodimer interface [polypeptide binding]; other site 1196325005761 homodimer interface [polypeptide binding]; other site 1196325005762 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1196325005763 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1196325005764 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1196325005765 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1196325005766 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 1196325005767 dimerization interface [polypeptide binding]; other site 1196325005768 ATP binding site [chemical binding]; other site 1196325005769 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 1196325005770 dimerization interface [polypeptide binding]; other site 1196325005771 ATP binding site [chemical binding]; other site 1196325005772 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1196325005773 putative active site [active] 1196325005774 catalytic triad [active] 1196325005775 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1196325005776 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1196325005777 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325005778 DNA-binding site [nucleotide binding]; DNA binding site 1196325005779 FCD domain; Region: FCD; pfam07729 1196325005780 cyanate transporter; Region: CynX; TIGR00896 1196325005781 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 1196325005782 putative substrate translocation pore; other site 1196325005783 SnoaL-like domain; Region: SnoaL_2; pfam12680 1196325005784 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1196325005785 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1196325005786 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 1196325005787 IHF - DNA interface [nucleotide binding]; other site 1196325005788 IHF dimer interface [polypeptide binding]; other site 1196325005789 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1196325005790 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 1196325005791 S-adenosylmethionine binding site [chemical binding]; other site 1196325005792 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1196325005793 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1196325005794 HIGH motif; other site 1196325005795 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1196325005796 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1196325005797 active site 1196325005798 KMSKS motif; other site 1196325005799 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1196325005800 tRNA binding surface [nucleotide binding]; other site 1196325005801 anticodon binding site; other site 1196325005802 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1196325005803 DNA polymerase III subunit chi; Validated; Region: PRK05728 1196325005804 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1196325005805 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 1196325005806 interface (dimer of trimers) [polypeptide binding]; other site 1196325005807 Substrate-binding/catalytic site; other site 1196325005808 Zn-binding sites [ion binding]; other site 1196325005809 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1196325005810 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1196325005811 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1196325005812 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1196325005813 RDD family; Region: RDD; pfam06271 1196325005814 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 1196325005815 DNA-binding site [nucleotide binding]; DNA binding site 1196325005816 RNA-binding motif; other site 1196325005817 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1196325005818 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1196325005819 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1196325005820 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1196325005821 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1196325005822 glycine dehydrogenase; Provisional; Region: PRK05367 1196325005823 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 1196325005824 tetramer interface [polypeptide binding]; other site 1196325005825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325005826 catalytic residue [active] 1196325005827 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 1196325005828 tetramer interface [polypeptide binding]; other site 1196325005829 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325005830 catalytic residue [active] 1196325005831 glycine cleavage system protein H; Provisional; Region: PRK13380 1196325005832 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 1196325005833 lipoyl attachment site [posttranslational modification]; other site 1196325005834 Predicted membrane protein [Function unknown]; Region: COG2259 1196325005835 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 1196325005836 hypothetical protein; Provisional; Region: PRK05409 1196325005837 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 1196325005838 RNA polymerase sigma factor; Provisional; Region: PRK12536 1196325005839 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325005840 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 1196325005841 DNA binding residues [nucleotide binding] 1196325005842 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 1196325005843 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 1196325005844 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1196325005845 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 1196325005846 putative aromatic amino acid binding site; other site 1196325005847 PAS domain; Region: PAS; smart00091 1196325005848 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 1196325005849 Walker A motif; other site 1196325005850 ATP binding site [chemical binding]; other site 1196325005851 Walker B motif; other site 1196325005852 arginine finger; other site 1196325005853 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1196325005854 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1196325005855 putative substrate binding site [chemical binding]; other site 1196325005856 nucleotide binding site [chemical binding]; other site 1196325005857 nucleotide binding site [chemical binding]; other site 1196325005858 homodimer interface [polypeptide binding]; other site 1196325005859 ornithine carbamoyltransferase; Validated; Region: PRK02102 1196325005860 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1196325005861 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1196325005862 arginine deiminase; Provisional; Region: PRK01388 1196325005863 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1196325005864 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1196325005865 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1196325005866 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 1196325005867 heme binding pocket [chemical binding]; other site 1196325005868 heme ligand [chemical binding]; other site 1196325005869 Secretin and TonB N terminus short domain; Region: STN; smart00965 1196325005870 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1196325005871 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 1196325005872 N-terminal plug; other site 1196325005873 ligand-binding site [chemical binding]; other site 1196325005874 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1196325005875 FecR protein; Region: FecR; pfam04773 1196325005876 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1196325005877 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325005878 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 1196325005879 DNA binding residues [nucleotide binding] 1196325005880 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1196325005881 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1196325005882 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1196325005883 phosphogluconate dehydratase; Validated; Region: PRK09054 1196325005884 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1196325005885 glucokinase; Provisional; Region: glk; PRK00292 1196325005886 glucokinase, proteobacterial type; Region: glk; TIGR00749 1196325005887 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196325005888 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 1196325005889 active site 1196325005890 phosphorylation site [posttranslational modification] 1196325005891 intermolecular recognition site; other site 1196325005892 dimerization interface [polypeptide binding]; other site 1196325005893 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 1196325005894 DNA binding site [nucleotide binding] 1196325005895 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1196325005896 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 1196325005897 ATP binding site [chemical binding]; other site 1196325005898 Mg2+ binding site [ion binding]; other site 1196325005899 G-X-G motif; other site 1196325005900 dimerization interface [polypeptide binding]; other site 1196325005901 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 1196325005902 putative active cleft [active] 1196325005903 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1196325005904 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1196325005905 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 1196325005906 dimer interface [polypeptide binding]; other site 1196325005907 conserved gate region; other site 1196325005908 putative PBP binding loops; other site 1196325005909 ABC-ATPase subunit interface; other site 1196325005910 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1196325005911 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 1196325005912 dimer interface [polypeptide binding]; other site 1196325005913 conserved gate region; other site 1196325005914 putative PBP binding loops; other site 1196325005915 ABC-ATPase subunit interface; other site 1196325005916 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1196325005917 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1196325005918 Walker A/P-loop; other site 1196325005919 ATP binding site [chemical binding]; other site 1196325005920 Q-loop/lid; other site 1196325005921 ABC transporter signature motif; other site 1196325005922 Walker B; other site 1196325005923 D-loop; other site 1196325005924 H-loop/switch region; other site 1196325005925 TOBE domain; Region: TOBE_2; pfam08402 1196325005926 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 1196325005927 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1196325005928 active site 1196325005929 phosphate binding residues; other site 1196325005930 catalytic residues [active] 1196325005931 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1196325005932 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1196325005933 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 1196325005934 putative active site [active] 1196325005935 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1196325005936 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1196325005937 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1196325005938 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1196325005939 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 1196325005940 putative active site [active] 1196325005941 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1196325005942 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1196325005943 active site 1196325005944 intersubunit interface [polypeptide binding]; other site 1196325005945 catalytic residue [active] 1196325005946 2-isopropylmalate synthase; Validated; Region: PRK03739 1196325005947 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1196325005948 active site 1196325005949 catalytic residues [active] 1196325005950 metal binding site [ion binding]; metal-binding site 1196325005951 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1196325005952 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1196325005953 Glypican; Region: Glypican; pfam01153 1196325005954 Peptidase family M23; Region: Peptidase_M23; pfam01551 1196325005955 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1196325005956 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 1196325005957 generic binding surface II; other site 1196325005958 generic binding surface I; other site 1196325005959 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325005960 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325005961 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 1196325005962 dimerization interface [polypeptide binding]; other site 1196325005963 substrate binding pocket [chemical binding]; other site 1196325005964 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1196325005965 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1196325005966 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 1196325005967 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 1196325005968 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 1196325005969 active site 1196325005970 GMP synthase; Reviewed; Region: guaA; PRK00074 1196325005971 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1196325005972 AMP/PPi binding site [chemical binding]; other site 1196325005973 candidate oxyanion hole; other site 1196325005974 catalytic triad [active] 1196325005975 potential glutamine specificity residues [chemical binding]; other site 1196325005976 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 1196325005977 ATP Binding subdomain [chemical binding]; other site 1196325005978 Ligand Binding sites [chemical binding]; other site 1196325005979 Dimerization subdomain; other site 1196325005980 C-terminal region of Pasteurella multocida toxin residues 569-1285; Region: PMT_C; pfam11647 1196325005981 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1196325005982 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1196325005983 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1196325005984 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 1196325005985 nucleoside/Zn binding site; other site 1196325005986 dimer interface [polypeptide binding]; other site 1196325005987 catalytic motif [active] 1196325005988 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1196325005989 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 1196325005990 substrate binding pocket [chemical binding]; other site 1196325005991 membrane-bound complex binding site; other site 1196325005992 hinge residues; other site 1196325005993 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 1196325005994 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1196325005995 catalytic residue [active] 1196325005996 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1196325005997 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196325005998 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 1196325005999 active site 1196325006000 phosphorylation site [posttranslational modification] 1196325006001 intermolecular recognition site; other site 1196325006002 dimerization interface [polypeptide binding]; other site 1196325006003 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 1196325006004 DNA binding site [nucleotide binding] 1196325006005 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325006006 HAMP domain; Region: HAMP; pfam00672 1196325006007 dimerization interface [polypeptide binding]; other site 1196325006008 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 1196325006009 dimer interface [polypeptide binding]; other site 1196325006010 phosphorylation site [posttranslational modification] 1196325006011 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 1196325006012 ATP binding site [chemical binding]; other site 1196325006013 Mg2+ binding site [ion binding]; other site 1196325006014 G-X-G motif; other site 1196325006015 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 1196325006016 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 1196325006017 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1196325006018 active site 1196325006019 catalytic tetrad [active] 1196325006020 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325006021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325006022 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 1196325006023 dimerization interface [polypeptide binding]; other site 1196325006024 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1196325006025 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 1196325006026 putative substrate translocation pore; other site 1196325006027 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1196325006028 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325006029 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325006030 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 1196325006031 dimerization interface [polypeptide binding]; other site 1196325006032 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1196325006033 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 1196325006034 substrate binding site [chemical binding]; other site 1196325006035 oxyanion hole (OAH) forming residues; other site 1196325006036 trimer interface [polypeptide binding]; other site 1196325006037 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1196325006038 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196325006039 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196325006040 active site 1196325006041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325006042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325006043 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 1196325006044 putative effector binding pocket; other site 1196325006045 dimerization interface [polypeptide binding]; other site 1196325006046 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1196325006047 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1196325006048 Family of unknown function (DUF633); Region: DUF633; pfam04816 1196325006049 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 1196325006050 homotrimer interaction site [polypeptide binding]; other site 1196325006051 putative active site [active] 1196325006052 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1196325006053 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 1196325006054 Peptidase family U32; Region: Peptidase_U32; pfam01136 1196325006055 Collagenase; Region: DUF3656; pfam12392 1196325006056 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1196325006057 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1196325006058 YccA-like proteins; Region: YccA_like; cd10433 1196325006059 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1196325006060 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325006061 DNA-binding site [nucleotide binding]; DNA binding site 1196325006062 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1196325006063 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325006064 DNA-binding site [nucleotide binding]; DNA binding site 1196325006065 FCD domain; Region: FCD; pfam07729 1196325006066 hypothetical protein; Provisional; Region: PRK06102 1196325006067 Amidase; Region: Amidase; cl11426 1196325006068 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 1196325006069 active site 1196325006070 catalytic site [active] 1196325006071 Zn binding site [ion binding]; other site 1196325006072 tetramer interface [polypeptide binding]; other site 1196325006073 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1196325006074 benzoate transport; Region: 2A0115; TIGR00895 1196325006075 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 1196325006076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325006077 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1196325006078 NAD(P) binding site [chemical binding]; other site 1196325006079 active site 1196325006080 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1196325006081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325006082 NAD(P) binding site [chemical binding]; other site 1196325006083 active site 1196325006084 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1196325006085 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 1196325006086 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1196325006087 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1196325006088 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1196325006089 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1196325006090 Bacterial transcriptional regulator; Region: IclR; pfam01614 1196325006091 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1196325006092 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1196325006093 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1196325006094 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1196325006095 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1196325006096 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 1196325006097 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1196325006098 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1196325006099 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14194 1196325006100 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1196325006101 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1196325006102 homodimer interface [polypeptide binding]; other site 1196325006103 NADP binding site [chemical binding]; other site 1196325006104 substrate binding site [chemical binding]; other site 1196325006105 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1196325006106 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1196325006107 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1196325006108 putative active site [active] 1196325006109 putative substrate binding site [chemical binding]; other site 1196325006110 putative cosubstrate binding site; other site 1196325006111 catalytic site [active] 1196325006112 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1196325006113 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 1196325006114 non-specific DNA binding site [nucleotide binding]; other site 1196325006115 salt bridge; other site 1196325006116 sequence-specific DNA binding site [nucleotide binding]; other site 1196325006117 Cupin domain; Region: Cupin_2; pfam07883 1196325006118 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 1196325006119 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1196325006120 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 1196325006121 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 1196325006122 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 1196325006123 putative active site [active] 1196325006124 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 1196325006125 domain_subunit interface; other site 1196325006126 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 1196325006127 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 1196325006128 active site 1196325006129 FMN binding site [chemical binding]; other site 1196325006130 substrate binding site [chemical binding]; other site 1196325006131 3Fe-4S cluster binding site [ion binding]; other site 1196325006132 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1196325006133 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 1196325006134 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1196325006135 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1196325006136 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1196325006137 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 1196325006138 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325006139 dimer interface [polypeptide binding]; other site 1196325006140 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1196325006141 putative CheW interface [polypeptide binding]; other site 1196325006142 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1196325006143 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1196325006144 extended (e) SDRs; Region: SDR_e; cd08946 1196325006145 NAD(P) binding site [chemical binding]; other site 1196325006146 active site 1196325006147 substrate binding site [chemical binding]; other site 1196325006148 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 1196325006149 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1196325006150 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 4. 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_4; cd03329 1196325006151 putative active site pocket [active] 1196325006152 metal binding site [ion binding]; metal-binding site 1196325006153 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1196325006154 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_7; cd08512 1196325006155 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1196325006156 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 1196325006157 dimer interface [polypeptide binding]; other site 1196325006158 conserved gate region; other site 1196325006159 ABC-ATPase subunit interface; other site 1196325006160 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1196325006161 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 1196325006162 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_7; cd08512 1196325006163 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1196325006164 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1196325006165 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 1196325006166 dimer interface [polypeptide binding]; other site 1196325006167 conserved gate region; other site 1196325006168 ABC-ATPase subunit interface; other site 1196325006169 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1196325006170 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1196325006171 Walker A/P-loop; other site 1196325006172 ATP binding site [chemical binding]; other site 1196325006173 Q-loop/lid; other site 1196325006174 ABC transporter signature motif; other site 1196325006175 Walker B; other site 1196325006176 D-loop; other site 1196325006177 H-loop/switch region; other site 1196325006178 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1196325006179 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1196325006180 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1196325006181 Walker A/P-loop; other site 1196325006182 ATP binding site [chemical binding]; other site 1196325006183 Q-loop/lid; other site 1196325006184 ABC transporter signature motif; other site 1196325006185 Walker B; other site 1196325006186 D-loop; other site 1196325006187 H-loop/switch region; other site 1196325006188 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1196325006189 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 1196325006190 Interdomain contacts; other site 1196325006191 Cytokine receptor motif; other site 1196325006192 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 1196325006193 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1196325006194 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325006195 DNA-binding site [nucleotide binding]; DNA binding site 1196325006196 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1196325006197 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1196325006198 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325006199 DNA-binding site [nucleotide binding]; DNA binding site 1196325006200 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1196325006201 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1196325006202 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1196325006203 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325006204 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1196325006205 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1196325006206 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1196325006207 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1196325006208 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1196325006209 Cytochrome c; Region: Cytochrom_C; pfam00034 1196325006210 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1196325006211 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1196325006212 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1196325006213 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 1196325006214 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1196325006215 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1196325006216 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14950 1196325006217 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1196325006218 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1196325006219 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 1196325006220 binding surface 1196325006221 TPR motif; other site 1196325006222 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1196325006223 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 1196325006224 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1196325006225 catalytic residues [active] 1196325006226 central insert; other site 1196325006227 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1196325006228 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1196325006229 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1196325006230 heme exporter protein CcmC; Region: ccmC; TIGR01191 1196325006231 heme exporter protein CcmB; Region: ccmB; TIGR01190 1196325006232 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1196325006233 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1196325006234 Walker A/P-loop; other site 1196325006235 ATP binding site [chemical binding]; other site 1196325006236 Q-loop/lid; other site 1196325006237 ABC transporter signature motif; other site 1196325006238 Walker B; other site 1196325006239 D-loop; other site 1196325006240 H-loop/switch region; other site 1196325006241 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1196325006242 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1196325006243 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1196325006244 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 1196325006245 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 1196325006246 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 1196325006247 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 1196325006248 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1196325006249 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 1196325006250 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 1196325006251 dimerization interface [polypeptide binding]; other site 1196325006252 active site 1196325006253 thioredoxin reductase; Provisional; Region: PRK10262 1196325006254 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196325006255 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196325006256 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1196325006257 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 1196325006258 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 1196325006259 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 1196325006260 PAS domain; Region: PAS_9; pfam13426 1196325006261 putative active site [active] 1196325006262 heme pocket [chemical binding]; other site 1196325006263 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 1196325006264 PAS domain; Region: PAS_9; pfam13426 1196325006265 putative active site [active] 1196325006266 heme pocket [chemical binding]; other site 1196325006267 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325006268 dimer interface [polypeptide binding]; other site 1196325006269 putative CheW interface [polypeptide binding]; other site 1196325006270 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196325006271 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 1196325006272 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 1196325006273 catalytic residues [active] 1196325006274 dimer interface [polypeptide binding]; other site 1196325006275 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1196325006276 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1196325006277 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 1196325006278 phosphate acetyltransferase; Reviewed; Region: PRK05632 1196325006279 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 1196325006280 DRTGG domain; Region: DRTGG; pfam07085 1196325006281 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1196325006282 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196325006283 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196325006284 ligand binding site [chemical binding]; other site 1196325006285 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1196325006286 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1196325006287 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 1196325006288 active site 1196325006289 phosphorylation site [posttranslational modification] 1196325006290 intermolecular recognition site; other site 1196325006291 dimerization interface [polypeptide binding]; other site 1196325006292 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 1196325006293 Walker A motif; other site 1196325006294 ATP binding site [chemical binding]; other site 1196325006295 Walker B motif; other site 1196325006296 arginine finger; other site 1196325006297 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1196325006298 Na binding site [ion binding]; other site 1196325006299 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1196325006300 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 1196325006301 putative active site [active] 1196325006302 heme pocket [chemical binding]; other site 1196325006303 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 1196325006304 dimer interface [polypeptide binding]; other site 1196325006305 phosphorylation site [posttranslational modification] 1196325006306 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 1196325006307 ATP binding site [chemical binding]; other site 1196325006308 Mg2+ binding site [ion binding]; other site 1196325006309 G-X-G motif; other site 1196325006310 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1196325006311 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1196325006312 active site 1196325006313 nucleotide binding site [chemical binding]; other site 1196325006314 HIGH motif; other site 1196325006315 KMSKS motif; other site 1196325006316 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1196325006317 hypothetical protein; Provisional; Region: PRK08960 1196325006318 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 1196325006319 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325006320 homodimer interface [polypeptide binding]; other site 1196325006321 catalytic residue [active] 1196325006322 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1196325006323 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1196325006324 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 1196325006325 intersubunit interface [polypeptide binding]; other site 1196325006326 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1196325006327 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 1196325006328 ABC-ATPase subunit interface; other site 1196325006329 dimer interface [polypeptide binding]; other site 1196325006330 putative PBP binding regions; other site 1196325006331 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1196325006332 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1196325006333 Walker A/P-loop; other site 1196325006334 ATP binding site [chemical binding]; other site 1196325006335 Q-loop/lid; other site 1196325006336 ABC transporter signature motif; other site 1196325006337 Walker B; other site 1196325006338 D-loop; other site 1196325006339 H-loop/switch region; other site 1196325006340 Protein of unknown function, DUF399; Region: DUF399; cl01139 1196325006341 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1196325006342 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 1196325006343 AAA domain; Region: AAA_33; pfam13671 1196325006344 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 1196325006345 ATP-binding site [chemical binding]; other site 1196325006346 Gluconate-6-phosphate binding site [chemical binding]; other site 1196325006347 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1196325006348 Transglycosylase; Region: Transgly; pfam00912 1196325006349 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1196325006350 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 1196325006351 TPR motif; other site 1196325006352 binding surface 1196325006353 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 1196325006354 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 1196325006355 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1196325006356 PYR/PP interface [polypeptide binding]; other site 1196325006357 dimer interface [polypeptide binding]; other site 1196325006358 TPP binding site [chemical binding]; other site 1196325006359 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1196325006360 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 1196325006361 TPP-binding site [chemical binding]; other site 1196325006362 dimer interface [polypeptide binding]; other site 1196325006363 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1196325006364 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1196325006365 putative valine binding site [chemical binding]; other site 1196325006366 dimer interface [polypeptide binding]; other site 1196325006367 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1196325006368 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1196325006369 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1196325006370 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1196325006371 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1196325006372 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1196325006373 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1196325006374 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 1196325006375 Moco binding site; other site 1196325006376 metal coordination site [ion binding]; other site 1196325006377 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1196325006378 anthranilate synthase component I; Provisional; Region: PRK13565 1196325006379 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1196325006380 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1196325006381 phosphoglycolate phosphatase; Provisional; Region: PRK13223 1196325006382 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1196325006383 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 1196325006384 motif II; other site 1196325006385 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 1196325006386 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1196325006387 substrate binding site [chemical binding]; other site 1196325006388 hexamer interface [polypeptide binding]; other site 1196325006389 metal binding site [ion binding]; metal-binding site 1196325006390 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1196325006391 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 1196325006392 dimer interface [polypeptide binding]; other site 1196325006393 conserved gate region; other site 1196325006394 putative PBP binding loops; other site 1196325006395 ABC-ATPase subunit interface; other site 1196325006396 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 1196325006397 dimer interface [polypeptide binding]; other site 1196325006398 conserved gate region; other site 1196325006399 putative PBP binding loops; other site 1196325006400 ABC-ATPase subunit interface; other site 1196325006401 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1196325006402 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1196325006403 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1196325006404 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1196325006405 Walker A/P-loop; other site 1196325006406 ATP binding site [chemical binding]; other site 1196325006407 Q-loop/lid; other site 1196325006408 ABC transporter signature motif; other site 1196325006409 Walker B; other site 1196325006410 D-loop; other site 1196325006411 H-loop/switch region; other site 1196325006412 TOBE domain; Region: TOBE_2; pfam08402 1196325006413 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196325006414 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 1196325006415 active site 1196325006416 phosphorylation site [posttranslational modification] 1196325006417 intermolecular recognition site; other site 1196325006418 dimerization interface [polypeptide binding]; other site 1196325006419 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 1196325006420 DNA binding residues [nucleotide binding] 1196325006421 dimerization interface [polypeptide binding]; other site 1196325006422 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 1196325006423 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325006424 substrate binding pocket [chemical binding]; other site 1196325006425 membrane-bound complex binding site; other site 1196325006426 hinge residues; other site 1196325006427 PAS domain; Region: PAS_9; pfam13426 1196325006428 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 1196325006429 putative active site [active] 1196325006430 heme pocket [chemical binding]; other site 1196325006431 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 1196325006432 PAS fold; Region: PAS_3; pfam08447 1196325006433 putative active site [active] 1196325006434 heme pocket [chemical binding]; other site 1196325006435 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1196325006436 Histidine kinase; Region: HisKA_3; pfam07730 1196325006437 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 1196325006438 ATP binding site [chemical binding]; other site 1196325006439 Mg2+ binding site [ion binding]; other site 1196325006440 G-X-G motif; other site 1196325006441 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 1196325006442 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196325006443 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1196325006444 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1196325006445 putative metal binding site [ion binding]; other site 1196325006446 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; cl02542 1196325006447 HSP70 interaction site [polypeptide binding]; other site 1196325006448 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 1196325006449 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1196325006450 Substrate binding site; other site 1196325006451 metal-binding site 1196325006452 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1196325006453 Phosphotransferase enzyme family; Region: APH; pfam01636 1196325006454 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1196325006455 OstA-like protein; Region: OstA; cl00844 1196325006456 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1196325006457 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1196325006458 SurA N-terminal domain; Region: SurA_N; pfam09312 1196325006459 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1196325006460 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1196325006461 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1196325006462 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1196325006463 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1196325006464 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1196325006465 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1196325006466 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1196325006467 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1196325006468 active site 1196325006469 metal binding site [ion binding]; metal-binding site 1196325006470 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 1196325006471 active site residue [active] 1196325006472 PrkA family serine protein kinase; Provisional; Region: PRK15455 1196325006473 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1196325006474 hypothetical protein; Provisional; Region: PRK05325 1196325006475 SpoVR family protein; Provisional; Region: PRK11767 1196325006476 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1196325006477 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1196325006478 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1196325006479 active site 1196325006480 NTP binding site [chemical binding]; other site 1196325006481 metal binding triad [ion binding]; metal-binding site 1196325006482 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1196325006483 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 1196325006484 catalytic center binding site [active] 1196325006485 ATP binding site [chemical binding]; other site 1196325006486 Dihydroneopterin aldolase; Region: FolB; smart00905 1196325006487 active site 1196325006488 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1196325006489 UGMP family protein; Validated; Region: PRK09604 1196325006490 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1196325006491 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1196325006492 DNA primase, catalytic core; Region: dnaG; TIGR01391 1196325006493 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1196325006494 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1196325006495 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 1196325006496 active site 1196325006497 metal binding site [ion binding]; metal-binding site 1196325006498 interdomain interaction site; other site 1196325006499 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1196325006500 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1196325006501 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1196325006502 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1196325006503 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1196325006504 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1196325006505 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325006506 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1196325006507 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 1196325006508 DNA binding residues [nucleotide binding] 1196325006509 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325006510 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 1196325006511 substrate binding pocket [chemical binding]; other site 1196325006512 membrane-bound complex binding site; other site 1196325006513 hinge residues; other site 1196325006514 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1196325006515 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 1196325006516 putative active site [active] 1196325006517 heme pocket [chemical binding]; other site 1196325006518 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 1196325006519 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 1196325006520 putative active site [active] 1196325006521 heme pocket [chemical binding]; other site 1196325006522 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 1196325006523 putative active site [active] 1196325006524 heme pocket [chemical binding]; other site 1196325006525 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 1196325006526 putative active site [active] 1196325006527 heme pocket [chemical binding]; other site 1196325006528 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325006529 metal binding site [ion binding]; metal-binding site 1196325006530 active site 1196325006531 I-site; other site 1196325006532 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 1196325006533 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 1196325006534 trimer interface [polypeptide binding]; other site 1196325006535 active site 1196325006536 substrate binding site [chemical binding]; other site 1196325006537 CoA binding site [chemical binding]; other site 1196325006538 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196325006539 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1196325006540 putative DNA binding site [nucleotide binding]; other site 1196325006541 putative Zn2+ binding site [ion binding]; other site 1196325006542 AsnC family; Region: AsnC_trans_reg; pfam01037 1196325006543 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1196325006544 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1196325006545 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 1196325006546 putative active site [active] 1196325006547 catalytic triad [active] 1196325006548 putative dimer interface [polypeptide binding]; other site 1196325006549 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 1196325006550 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1196325006551 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1196325006552 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1196325006553 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1196325006554 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1196325006555 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 1196325006556 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1196325006557 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 1196325006558 FeS/SAM binding site; other site 1196325006559 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1196325006560 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 1196325006561 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1196325006562 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 1196325006563 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 1196325006564 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 1196325006565 inhibitor-cofactor binding pocket; inhibition site 1196325006566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325006567 catalytic residue [active] 1196325006568 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325006569 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325006570 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 1196325006571 dimerization interface [polypeptide binding]; other site 1196325006572 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1196325006573 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1196325006574 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196325006575 active site 1196325006576 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1196325006577 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325006578 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325006579 metal binding site [ion binding]; metal-binding site 1196325006580 active site 1196325006581 I-site; other site 1196325006582 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1196325006583 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1196325006584 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196325006585 active site 1196325006586 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1196325006587 AAA domain; Region: AAA_26; pfam13500 1196325006588 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1196325006589 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1196325006590 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 1196325006591 S-adenosylmethionine binding site [chemical binding]; other site 1196325006592 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 1196325006593 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1196325006594 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1196325006595 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196325006596 catalytic residue [active] 1196325006597 biotin synthase; Provisional; Region: PRK15108 1196325006598 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 1196325006599 FeS/SAM binding site; other site 1196325006600 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1196325006601 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1196325006602 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 1196325006603 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1196325006604 TOBE domain; Region: TOBE; cl01440 1196325006605 serine/threonine protein kinase; Provisional; Region: PRK11768 1196325006606 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1196325006607 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1196325006608 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1196325006609 ACT domain; Region: ACT_6; pfam13740 1196325006610 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1196325006611 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 1196325006612 active site 1196325006613 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325006614 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 1196325006615 active site 1196325006616 phosphorylation site [posttranslational modification] 1196325006617 intermolecular recognition site; other site 1196325006618 dimerization interface [polypeptide binding]; other site 1196325006619 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1196325006620 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 1196325006621 ligand binding site [chemical binding]; other site 1196325006622 flexible hinge region; other site 1196325006623 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 1196325006624 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1196325006625 metal binding triad; other site 1196325006626 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1196325006627 active site 1196325006628 catalytic site [active] 1196325006629 substrate binding site [chemical binding]; other site 1196325006630 RNA polymerase sigma factor; Reviewed; Region: PRK12523 1196325006631 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325006632 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 1196325006633 DNA binding residues [nucleotide binding] 1196325006634 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1196325006635 FecR protein; Region: FecR; pfam04773 1196325006636 Autotransporter beta-domain; Region: Autotransporter; smart00869 1196325006637 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196325006638 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1196325006639 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325006640 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196325006641 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325006642 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196325006643 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1196325006644 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1196325006645 active site 1196325006646 catalytic triad [active] 1196325006647 dimer interface [polypeptide binding]; other site 1196325006648 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1196325006649 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 1196325006650 DNA binding site [nucleotide binding] 1196325006651 active site 1196325006652 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK09822 1196325006653 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1196325006654 CoA binding site [chemical binding]; other site 1196325006655 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1196325006656 acyl-activating enzyme (AAE) consensus motif; other site 1196325006657 active site 1196325006658 AMP binding site [chemical binding]; other site 1196325006659 CoA binding site [chemical binding]; other site 1196325006660 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1196325006661 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1196325006662 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196325006663 active site 1196325006664 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1196325006665 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1196325006666 Protein export membrane protein; Region: SecD_SecF; cl14618 1196325006667 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1196325006668 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1196325006669 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1196325006670 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1196325006671 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196325006672 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1196325006673 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196325006674 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325006675 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1196325006676 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1196325006677 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1196325006678 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 1196325006679 putative substrate translocation pore; other site 1196325006680 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1196325006681 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 1196325006682 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1196325006683 substrate binding pocket [chemical binding]; other site 1196325006684 active site 1196325006685 iron coordination sites [ion binding]; other site 1196325006686 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1196325006687 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1196325006688 NADP binding site [chemical binding]; other site 1196325006689 dimer interface [polypeptide binding]; other site 1196325006690 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 1196325006691 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 1196325006692 carboxy-terminal protease; Provisional; Region: PRK11186 1196325006693 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1196325006694 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 1196325006695 protein binding site [polypeptide binding]; other site 1196325006696 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1196325006697 Catalytic dyad [active] 1196325006698 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1196325006699 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1196325006700 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1196325006701 NAD(P) binding site [chemical binding]; other site 1196325006702 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1196325006703 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1196325006704 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1196325006705 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325006706 Walker A/P-loop; other site 1196325006707 ATP binding site [chemical binding]; other site 1196325006708 Q-loop/lid; other site 1196325006709 ABC transporter signature motif; other site 1196325006710 Walker B; other site 1196325006711 D-loop; other site 1196325006712 H-loop/switch region; other site 1196325006713 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1196325006714 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 1196325006715 dimer interface [polypeptide binding]; other site 1196325006716 conserved gate region; other site 1196325006717 putative PBP binding loops; other site 1196325006718 ABC-ATPase subunit interface; other site 1196325006719 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 1196325006720 dimer interface [polypeptide binding]; other site 1196325006721 conserved gate region; other site 1196325006722 putative PBP binding loops; other site 1196325006723 ABC-ATPase subunit interface; other site 1196325006724 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1196325006725 Sulfatase; Region: Sulfatase; cl17466 1196325006726 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1196325006727 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1196325006728 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325006729 transcriptional regulator protein; Region: phnR; TIGR03337 1196325006730 DNA-binding site [nucleotide binding]; DNA binding site 1196325006731 UTRA domain; Region: UTRA; pfam07702 1196325006732 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1196325006733 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1196325006734 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1196325006735 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1196325006736 active site 1196325006737 metal binding site [ion binding]; metal-binding site 1196325006738 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1196325006739 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1196325006740 active site 1196325006741 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1196325006742 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1196325006743 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 1196325006744 Switch I; other site 1196325006745 Switch II; other site 1196325006746 septum formation inhibitor; Reviewed; Region: minC; PRK00339 1196325006747 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1196325006748 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1196325006749 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1196325006750 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1196325006751 putative acyl-acceptor binding pocket; other site 1196325006752 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1196325006753 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1196325006754 active site 1196325006755 nucleophile elbow; other site 1196325006756 VacJ like lipoprotein; Region: VacJ; cl01073 1196325006757 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 1196325006758 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1196325006759 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1196325006760 Predicted membrane protein [Function unknown]; Region: COG3162 1196325006761 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1196325006762 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1196325006763 Na binding site [ion binding]; other site 1196325006764 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1196325006765 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1196325006766 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325006767 DNA-binding site [nucleotide binding]; DNA binding site 1196325006768 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1196325006769 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; cd00333 1196325006770 amphipathic channel; other site 1196325006771 Asn-Pro-Ala signature motifs; other site 1196325006772 guanine deaminase; Provisional; Region: PRK09228 1196325006773 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 1196325006774 active site 1196325006775 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1196325006776 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1196325006777 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1196325006778 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1196325006779 Peptidase C26; Region: Peptidase_C26; pfam07722 1196325006780 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1196325006781 catalytic triad [active] 1196325006782 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1196325006783 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1196325006784 Walker A/P-loop; other site 1196325006785 ATP binding site [chemical binding]; other site 1196325006786 Q-loop/lid; other site 1196325006787 ABC transporter signature motif; other site 1196325006788 Walker B; other site 1196325006789 D-loop; other site 1196325006790 H-loop/switch region; other site 1196325006791 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1196325006792 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1196325006793 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 1196325006794 dimer interface [polypeptide binding]; other site 1196325006795 putative PBP binding loops; other site 1196325006796 ABC-ATPase subunit interface; other site 1196325006797 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1196325006798 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 1196325006799 dimer interface [polypeptide binding]; other site 1196325006800 conserved gate region; other site 1196325006801 putative PBP binding loops; other site 1196325006802 ABC-ATPase subunit interface; other site 1196325006803 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 1196325006804 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325006805 substrate binding pocket [chemical binding]; other site 1196325006806 membrane-bound complex binding site; other site 1196325006807 hinge residues; other site 1196325006808 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1196325006809 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1196325006810 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 1196325006811 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1196325006812 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1196325006813 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 1196325006814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325006815 homodimer interface [polypeptide binding]; other site 1196325006816 catalytic residue [active] 1196325006817 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1196325006818 serine transporter; Region: stp; TIGR00814 1196325006819 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1196325006820 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 1196325006821 putative substrate translocation pore; other site 1196325006822 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 1196325006823 dimer interface [polypeptide binding]; other site 1196325006824 catalytic triad [active] 1196325006825 peroxidatic and resolving cysteines [active] 1196325006826 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1196325006827 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325006828 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325006829 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1196325006830 Protein export membrane protein; Region: SecD_SecF; cl14618 1196325006831 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1196325006832 Protein export membrane protein; Region: SecD_SecF; cl14618 1196325006833 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1196325006834 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1196325006835 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1196325006836 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1196325006837 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325006838 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325006839 metal binding site [ion binding]; metal-binding site 1196325006840 active site 1196325006841 I-site; other site 1196325006842 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 1196325006843 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 1196325006844 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 1196325006845 phosphoglucomutase; Validated; Region: PRK07564 1196325006846 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 1196325006847 active site 1196325006848 substrate binding site [chemical binding]; other site 1196325006849 metal binding site [ion binding]; metal-binding site 1196325006850 RNA polymerase sigma factor; Provisional; Region: PRK12528 1196325006851 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325006852 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1196325006853 DNA binding residues [nucleotide binding] 1196325006854 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1196325006855 FecR protein; Region: FecR; pfam04773 1196325006856 Secretin and TonB N terminus short domain; Region: STN; smart00965 1196325006857 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1196325006858 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 1196325006859 N-terminal plug; other site 1196325006860 ligand-binding site [chemical binding]; other site 1196325006861 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1196325006862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325006863 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 1196325006864 dimerization interface [polypeptide binding]; other site 1196325006865 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1196325006866 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 1196325006867 active site 1196325006868 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1196325006869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325006870 NAD(P) binding site [chemical binding]; other site 1196325006871 active site 1196325006872 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 1196325006873 homotrimer interaction site [polypeptide binding]; other site 1196325006874 putative active site [active] 1196325006875 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 1196325006876 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196325006877 Uncharacterized conserved protein [Function unknown]; Region: COG3342 1196325006878 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 1196325006879 acetylornithine deacetylase; Provisional; Region: PRK07522 1196325006880 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1196325006881 metal binding site [ion binding]; metal-binding site 1196325006882 putative dimer interface [polypeptide binding]; other site 1196325006883 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1196325006884 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1196325006885 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1196325006886 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1196325006887 Trp docking motif [polypeptide binding]; other site 1196325006888 putative active site [active] 1196325006889 Cupin domain; Region: Cupin_2; cl17218 1196325006890 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325006891 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325006892 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 1196325006893 putative effector binding pocket; other site 1196325006894 dimerization interface [polypeptide binding]; other site 1196325006895 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 1196325006896 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1196325006897 LysE type translocator; Region: LysE; cl00565 1196325006898 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1196325006899 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1196325006900 conserved cys residue [active] 1196325006901 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325006902 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 1196325006903 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1196325006904 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 1196325006905 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1196325006906 Predicted permeases [General function prediction only]; Region: COG0679 1196325006907 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325006908 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325006909 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 1196325006910 putative dimerization interface [polypeptide binding]; other site 1196325006911 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 1196325006912 dimer interface [polypeptide binding]; other site 1196325006913 conserved gate region; other site 1196325006914 ABC-ATPase subunit interface; other site 1196325006915 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1196325006916 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1196325006917 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 1196325006918 dimerization interface [polypeptide binding]; other site 1196325006919 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325006920 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325006921 dimer interface [polypeptide binding]; other site 1196325006922 putative CheW interface [polypeptide binding]; other site 1196325006923 Predicted permease [General function prediction only]; Region: COG2056 1196325006924 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1196325006925 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 1196325006926 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1196325006927 FecR protein; Region: FecR; pfam04773 1196325006928 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1196325006929 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1196325006930 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196325006931 active site 1196325006932 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1196325006933 acyl-CoA synthetase; Validated; Region: PRK08162 1196325006934 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1196325006935 acyl-activating enzyme (AAE) consensus motif; other site 1196325006936 putative active site [active] 1196325006937 AMP binding site [chemical binding]; other site 1196325006938 putative CoA binding site [chemical binding]; other site 1196325006939 PAS domain S-box; Region: sensory_box; TIGR00229 1196325006940 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 1196325006941 putative active site [active] 1196325006942 heme pocket [chemical binding]; other site 1196325006943 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 1196325006944 dimer interface [polypeptide binding]; other site 1196325006945 phosphorylation site [posttranslational modification] 1196325006946 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 1196325006947 ATP binding site [chemical binding]; other site 1196325006948 G-X-G motif; other site 1196325006949 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1196325006950 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 1196325006951 active site 1196325006952 phosphorylation site [posttranslational modification] 1196325006953 intermolecular recognition site; other site 1196325006954 dimerization interface [polypeptide binding]; other site 1196325006955 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 1196325006956 DNA binding residues [nucleotide binding] 1196325006957 dimerization interface [polypeptide binding]; other site 1196325006958 MarR family; Region: MarR_2; cl17246 1196325006959 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1196325006960 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1196325006961 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325006962 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325006963 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1196325006964 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 1196325006965 putative substrate translocation pore; other site 1196325006966 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 1196325006967 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1196325006968 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1196325006969 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1196325006970 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1196325006971 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1196325006972 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1196325006973 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1196325006974 flagellar motor switch protein; Validated; Region: fliN; PRK05698 1196325006975 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1196325006976 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1196325006977 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1196325006978 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 1196325006979 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1196325006980 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 1196325006981 putative binding surface; other site 1196325006982 active site 1196325006983 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325006984 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 1196325006985 active site 1196325006986 phosphorylation site [posttranslational modification] 1196325006987 intermolecular recognition site; other site 1196325006988 dimerization interface [polypeptide binding]; other site 1196325006989 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1196325006990 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1196325006991 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; cl00075 1196325006992 ATP binding site [chemical binding]; other site 1196325006993 Mg2+ binding site [ion binding]; other site 1196325006994 G-X-G motif; other site 1196325006995 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1196325006996 anti sigma factor interaction site; other site 1196325006997 regulatory phosphorylation site [posttranslational modification]; other site 1196325006998 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1196325006999 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 1196325007000 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 1196325007001 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 1196325007002 Walker A motif/ATP binding site; other site 1196325007003 Walker B motif; other site 1196325007004 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1196325007005 Flagellar assembly protein FliH; Region: FliH; pfam02108 1196325007006 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1196325007007 MgtE intracellular N domain; Region: MgtE_N; cl15244 1196325007008 FliG C-terminal domain; Region: FliG_C; pfam01706 1196325007009 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1196325007010 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1196325007011 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1196325007012 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 1196325007013 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1196325007014 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 1196325007015 active site 1196325007016 phosphorylation site [posttranslational modification] 1196325007017 intermolecular recognition site; other site 1196325007018 dimerization interface [polypeptide binding]; other site 1196325007019 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 1196325007020 Walker A motif; other site 1196325007021 ATP binding site [chemical binding]; other site 1196325007022 Walker B motif; other site 1196325007023 arginine finger; other site 1196325007024 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1196325007025 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1196325007026 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 1196325007027 putative active site [active] 1196325007028 heme pocket [chemical binding]; other site 1196325007029 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 1196325007030 dimer interface [polypeptide binding]; other site 1196325007031 phosphorylation site [posttranslational modification] 1196325007032 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 1196325007033 ATP binding site [chemical binding]; other site 1196325007034 Mg2+ binding site [ion binding]; other site 1196325007035 G-X-G motif; other site 1196325007036 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1196325007037 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 1196325007038 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 1196325007039 Walker A motif; other site 1196325007040 ATP binding site [chemical binding]; other site 1196325007041 Walker B motif; other site 1196325007042 arginine finger; other site 1196325007043 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196325007044 flagellar protein FliS; Validated; Region: fliS; PRK05685 1196325007045 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1196325007046 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1196325007047 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1196325007048 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1196325007049 FlaG protein; Region: FlaG; pfam03646 1196325007050 flagellin; Provisional; Region: PRK12802 1196325007051 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1196325007052 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1196325007053 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 1196325007054 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 1196325007055 dimer interface [polypeptide binding]; other site 1196325007056 active site 1196325007057 CoA binding pocket [chemical binding]; other site 1196325007058 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1196325007059 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1196325007060 active site 1196325007061 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 1196325007062 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1196325007063 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 1196325007064 active site 1196325007065 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 1196325007066 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1196325007067 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 1196325007068 S-adenosylmethionine binding site [chemical binding]; other site 1196325007069 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1196325007070 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 1196325007071 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196325007072 catalytic residue [active] 1196325007073 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 1196325007074 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1196325007075 inhibitor-cofactor binding pocket; inhibition site 1196325007076 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325007077 catalytic residue [active] 1196325007078 WbqC-like protein family; Region: WbqC; pfam08889 1196325007079 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 1196325007080 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1196325007081 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 1196325007082 active site 1196325007083 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1196325007084 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1196325007085 active site 1196325007086 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 1196325007087 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1196325007088 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 1196325007089 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196325007090 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1196325007091 flagellar hook-associated protein FlgL; Provisional; Region: flgL; PRK12717 1196325007092 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1196325007093 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 1196325007094 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1196325007095 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1196325007096 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1196325007097 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 1196325007098 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1196325007099 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1196325007100 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 1196325007101 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1196325007102 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1196325007103 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1196325007104 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1196325007105 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1196325007106 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1196325007107 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1196325007108 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1196325007109 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 1196325007110 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1196325007111 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1196325007112 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1196325007113 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1196325007114 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1196325007115 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1196325007116 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1196325007117 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1196325007118 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1196325007119 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1196325007120 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1196325007121 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1196325007122 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1196325007123 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 1196325007124 Ligand Binding Site [chemical binding]; other site 1196325007125 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1196325007126 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1196325007127 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1196325007128 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1196325007129 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1196325007130 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1196325007131 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1196325007132 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1196325007133 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1196325007134 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1196325007135 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 1196325007136 catalytic core [active] 1196325007137 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 1196325007138 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1196325007139 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1196325007140 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1196325007141 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1196325007142 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 1196325007143 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 1196325007144 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 1196325007145 dimerization interface [polypeptide binding]; other site 1196325007146 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 1196325007147 dimer interface [polypeptide binding]; other site 1196325007148 phosphorylation site [posttranslational modification] 1196325007149 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 1196325007150 ATP binding site [chemical binding]; other site 1196325007151 Mg2+ binding site [ion binding]; other site 1196325007152 G-X-G motif; other site 1196325007153 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325007154 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 1196325007155 active site 1196325007156 phosphorylation site [posttranslational modification] 1196325007157 intermolecular recognition site; other site 1196325007158 dimerization interface [polypeptide binding]; other site 1196325007159 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 1196325007160 active site 1 [active] 1196325007161 dimer interface [polypeptide binding]; other site 1196325007162 active site 2 [active] 1196325007163 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1196325007164 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 1196325007165 dimer interface [polypeptide binding]; other site 1196325007166 active site 1196325007167 Amidohydrolase; Region: Amidohydro_2; pfam04909 1196325007168 Pirin-related protein [General function prediction only]; Region: COG1741 1196325007169 Pirin; Region: Pirin; pfam02678 1196325007170 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1196325007171 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1196325007172 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1196325007173 heat shock protein 90; Provisional; Region: PRK05218 1196325007174 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 1196325007175 ATP binding site [chemical binding]; other site 1196325007176 Mg2+ binding site [ion binding]; other site 1196325007177 G-X-G motif; other site 1196325007178 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 1196325007179 CoenzymeA binding site [chemical binding]; other site 1196325007180 subunit interaction site [polypeptide binding]; other site 1196325007181 PHB binding site; other site 1196325007182 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 1196325007183 CoenzymeA binding site [chemical binding]; other site 1196325007184 subunit interaction site [polypeptide binding]; other site 1196325007185 PHB binding site; other site 1196325007186 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196325007187 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 1196325007188 putative C-terminal domain interface [polypeptide binding]; other site 1196325007189 putative GSH binding site (G-site) [chemical binding]; other site 1196325007190 putative dimer interface [polypeptide binding]; other site 1196325007191 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1196325007192 N-terminal domain interface [polypeptide binding]; other site 1196325007193 dimer interface [polypeptide binding]; other site 1196325007194 substrate binding pocket (H-site) [chemical binding]; other site 1196325007195 benzoate transporter; Region: benE; TIGR00843 1196325007196 Benzoate membrane transport protein; Region: BenE; pfam03594 1196325007197 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325007198 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325007199 dimer interface [polypeptide binding]; other site 1196325007200 putative CheW interface [polypeptide binding]; other site 1196325007201 short chain dehydrogenase; Provisional; Region: PRK06172 1196325007202 classical (c) SDRs; Region: SDR_c; cd05233 1196325007203 NAD(P) binding site [chemical binding]; other site 1196325007204 active site 1196325007205 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1196325007206 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1196325007207 NAD(P) binding site [chemical binding]; other site 1196325007208 substrate binding site [chemical binding]; other site 1196325007209 dimer interface [polypeptide binding]; other site 1196325007210 carbon storage regulator; Provisional; Region: PRK01712 1196325007211 aspartate kinase; Reviewed; Region: PRK06635 1196325007212 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 1196325007213 putative nucleotide binding site [chemical binding]; other site 1196325007214 putative catalytic residues [active] 1196325007215 putative Mg ion binding site [ion binding]; other site 1196325007216 putative aspartate binding site [chemical binding]; other site 1196325007217 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 1196325007218 putative allosteric regulatory site; other site 1196325007219 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 1196325007220 putative allosteric regulatory residue; other site 1196325007221 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1196325007222 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 1196325007223 motif 1; other site 1196325007224 active site 1196325007225 motif 2; other site 1196325007226 motif 3; other site 1196325007227 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1196325007228 DHHA1 domain; Region: DHHA1; pfam02272 1196325007229 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 1196325007230 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1196325007231 putative active site [active] 1196325007232 Zn binding site [ion binding]; other site 1196325007233 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 1196325007234 succinylarginine dihydrolase; Provisional; Region: PRK13281 1196325007235 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1196325007236 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1196325007237 NAD(P) binding site [chemical binding]; other site 1196325007238 catalytic residues [active] 1196325007239 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1196325007240 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 1196325007241 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1196325007242 arginine/ornithine succinyltransferase, alpha subunit; Region: arg_AOST_alph; TIGR03245 1196325007243 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1196325007244 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 1196325007245 inhibitor-cofactor binding pocket; inhibition site 1196325007246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325007247 catalytic residue [active] 1196325007248 putative transposase OrfB; Reviewed; Region: PHA02517 1196325007249 HTH-like domain; Region: HTH_21; pfam13276 1196325007250 Integrase core domain; Region: rve; pfam00665 1196325007251 Integrase core domain; Region: rve_2; pfam13333 1196325007252 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1196325007253 Homeodomain-like domain; Region: HTH_23; cl17451 1196325007254 Helix-turn-helix domain; Region: HTH_28; pfam13518 1196325007255 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1196325007256 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1196325007257 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 1196325007258 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196325007259 catalytic residue [active] 1196325007260 cystathionine beta-lyase; Provisional; Region: PRK07050 1196325007261 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 1196325007262 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196325007263 catalytic residue [active] 1196325007264 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 1196325007265 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 1196325007266 B12 binding site [chemical binding]; other site 1196325007267 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1196325007268 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1196325007269 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325007270 DNA-binding site [nucleotide binding]; DNA binding site 1196325007271 FCD domain; Region: FCD; pfam07729 1196325007272 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1196325007273 FHIPEP family; Region: FHIPEP; pfam00771 1196325007274 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1196325007275 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 1196325007276 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1196325007277 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 1196325007278 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 1196325007279 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 1196325007280 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1196325007281 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325007282 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1196325007283 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 1196325007284 DNA binding residues [nucleotide binding] 1196325007285 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1196325007286 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 1196325007287 active site 1196325007288 phosphorylation site [posttranslational modification] 1196325007289 intermolecular recognition site; other site 1196325007290 dimerization interface [polypeptide binding]; other site 1196325007291 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 1196325007292 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 1196325007293 putative binding surface; other site 1196325007294 active site 1196325007295 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1196325007296 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1196325007297 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1196325007298 acyl-activating enzyme (AAE) consensus motif; other site 1196325007299 putative AMP binding site [chemical binding]; other site 1196325007300 putative active site [active] 1196325007301 putative CoA binding site [chemical binding]; other site 1196325007302 ecotin; Provisional; Region: PRK03719 1196325007303 secondary substrate binding site; other site 1196325007304 primary substrate binding site; other site 1196325007305 inhibition loop; other site 1196325007306 dimerization interface [polypeptide binding]; other site 1196325007307 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1196325007308 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 1196325007309 NAD binding site [chemical binding]; other site 1196325007310 homotetramer interface [polypeptide binding]; other site 1196325007311 homodimer interface [polypeptide binding]; other site 1196325007312 substrate binding site [chemical binding]; other site 1196325007313 active site 1196325007314 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1196325007315 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1196325007316 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 1196325007317 Walker B motif; other site 1196325007318 arginine finger; other site 1196325007319 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196325007320 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1196325007321 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 1196325007322 dimer interface [polypeptide binding]; other site 1196325007323 conserved gate region; other site 1196325007324 putative PBP binding loops; other site 1196325007325 ABC-ATPase subunit interface; other site 1196325007326 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1196325007327 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 1196325007328 dimer interface [polypeptide binding]; other site 1196325007329 conserved gate region; other site 1196325007330 putative PBP binding loops; other site 1196325007331 ABC-ATPase subunit interface; other site 1196325007332 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1196325007333 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 1196325007334 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1196325007335 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1196325007336 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1196325007337 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1196325007338 substrate binding site [chemical binding]; other site 1196325007339 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 1196325007340 putative substrate translocation pore; other site 1196325007341 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196325007342 Predicted permeases [General function prediction only]; Region: COG0679 1196325007343 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1196325007344 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325007345 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325007346 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1196325007347 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 1196325007348 putative substrate translocation pore; other site 1196325007349 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1196325007350 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1196325007351 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1196325007352 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325007353 Walker A/P-loop; other site 1196325007354 ATP binding site [chemical binding]; other site 1196325007355 Q-loop/lid; other site 1196325007356 ABC transporter signature motif; other site 1196325007357 Walker B; other site 1196325007358 D-loop; other site 1196325007359 H-loop/switch region; other site 1196325007360 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1196325007361 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1196325007362 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1196325007363 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 1196325007364 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1196325007365 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196325007366 ligand binding site [chemical binding]; other site 1196325007367 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 1196325007368 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 1196325007369 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1196325007370 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1196325007371 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 1196325007372 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1196325007373 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1196325007374 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 1196325007375 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1196325007376 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 1196325007377 Walker A motif; other site 1196325007378 ATP binding site [chemical binding]; other site 1196325007379 Walker B motif; other site 1196325007380 arginine finger; other site 1196325007381 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 1196325007382 Walker A motif; other site 1196325007383 ATP binding site [chemical binding]; other site 1196325007384 Walker B motif; other site 1196325007385 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1196325007386 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 1196325007387 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1196325007388 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 1196325007389 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1196325007390 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 1196325007391 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1196325007392 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1196325007393 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 1196325007394 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1196325007395 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 1196325007396 metal binding site [ion binding]; metal-binding site 1196325007397 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 1196325007398 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1196325007399 sec-independent translocase; Provisional; Region: tatB; PRK00404 1196325007400 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 1196325007401 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1196325007402 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1196325007403 RNA methyltransferase, RsmE family; Region: TIGR00046 1196325007404 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 1196325007405 dimerization interface [polypeptide binding]; other site 1196325007406 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325007407 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325007408 dimer interface [polypeptide binding]; other site 1196325007409 putative CheW interface [polypeptide binding]; other site 1196325007410 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 1196325007411 dimerization interface [polypeptide binding]; other site 1196325007412 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325007413 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325007414 dimer interface [polypeptide binding]; other site 1196325007415 putative CheW interface [polypeptide binding]; other site 1196325007416 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1196325007417 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1196325007418 Walker A/P-loop; other site 1196325007419 ATP binding site [chemical binding]; other site 1196325007420 Q-loop/lid; other site 1196325007421 ABC transporter signature motif; other site 1196325007422 Walker B; other site 1196325007423 D-loop; other site 1196325007424 H-loop/switch region; other site 1196325007425 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1196325007426 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 1196325007427 dimer interface [polypeptide binding]; other site 1196325007428 conserved gate region; other site 1196325007429 putative PBP binding loops; other site 1196325007430 ABC-ATPase subunit interface; other site 1196325007431 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325007432 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 1196325007433 substrate binding pocket [chemical binding]; other site 1196325007434 membrane-bound complex binding site; other site 1196325007435 hinge residues; other site 1196325007436 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1196325007437 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1196325007438 Ligand binding site; other site 1196325007439 DXD motif; other site 1196325007440 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1196325007441 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 1196325007442 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 1196325007443 putative active site [active] 1196325007444 dimerization interface [polypeptide binding]; other site 1196325007445 putative tRNAtyr binding site [nucleotide binding]; other site 1196325007446 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1196325007447 TAP-like protein; Region: Abhydrolase_4; pfam08386 1196325007448 N-formylglutamate amidohydrolase; Region: hutG_amidohyd; TIGR02017 1196325007449 imidazolonepropionase; Validated; Region: PRK09356 1196325007450 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 1196325007451 active site 1196325007452 putative proline-specific permease; Provisional; Region: proY; PRK10580 1196325007453 Spore germination protein; Region: Spore_permease; cl17796 1196325007454 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1196325007455 active sites [active] 1196325007456 tetramer interface [polypeptide binding]; other site 1196325007457 urocanate hydratase; Provisional; Region: PRK05414 1196325007458 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1196325007459 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 1196325007460 active site 1196325007461 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1196325007462 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 1196325007463 putative molybdopterin cofactor binding site [chemical binding]; other site 1196325007464 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 1196325007465 putative molybdopterin cofactor binding site; other site 1196325007466 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 1196325007467 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1196325007468 BON domain; Region: BON; pfam04972 1196325007469 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1196325007470 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1196325007471 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 1196325007472 motif II; other site 1196325007473 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1196325007474 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 1196325007475 dimer interface [polypeptide binding]; other site 1196325007476 ADP-ribose binding site [chemical binding]; other site 1196325007477 active site 1196325007478 nudix motif; other site 1196325007479 metal binding site [ion binding]; metal-binding site 1196325007480 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1196325007481 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1196325007482 active site 1196325007483 thioesterase domain, putative; Region: yiiD_Cterm; TIGR02447 1196325007484 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1196325007485 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 1196325007486 active site 1196325007487 phosphorylation site [posttranslational modification] 1196325007488 intermolecular recognition site; other site 1196325007489 dimerization interface [polypeptide binding]; other site 1196325007490 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 1196325007491 Walker A motif; other site 1196325007492 ATP binding site [chemical binding]; other site 1196325007493 Walker B motif; other site 1196325007494 arginine finger; other site 1196325007495 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196325007496 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1196325007497 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 1196325007498 dimer interface [polypeptide binding]; other site 1196325007499 phosphorylation site [posttranslational modification] 1196325007500 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 1196325007501 ATP binding site [chemical binding]; other site 1196325007502 G-X-G motif; other site 1196325007503 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 1196325007504 agmatine deiminase; Provisional; Region: PRK13551 1196325007505 agmatine deiminase; Region: agmatine_aguA; TIGR03380 1196325007506 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1196325007507 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 1196325007508 N-terminal plug; other site 1196325007509 ligand-binding site [chemical binding]; other site 1196325007510 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325007511 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1196325007512 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 1196325007513 active site 1196325007514 FMN binding site [chemical binding]; other site 1196325007515 substrate binding site [chemical binding]; other site 1196325007516 3Fe-4S cluster binding site [ion binding]; other site 1196325007517 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1196325007518 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 1196325007519 ATP binding site [chemical binding]; other site 1196325007520 Mg2+ binding site [ion binding]; other site 1196325007521 G-X-G motif; other site 1196325007522 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196325007523 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 1196325007524 active site 1196325007525 phosphorylation site [posttranslational modification] 1196325007526 intermolecular recognition site; other site 1196325007527 dimerization interface [polypeptide binding]; other site 1196325007528 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 1196325007529 DNA binding site [nucleotide binding] 1196325007530 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1196325007531 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 1196325007532 N-terminal plug; other site 1196325007533 ligand-binding site [chemical binding]; other site 1196325007534 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 1196325007535 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325007536 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325007537 metal binding site [ion binding]; metal-binding site 1196325007538 active site 1196325007539 I-site; other site 1196325007540 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 1196325007541 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 1196325007542 salt bridge; other site 1196325007543 non-specific DNA binding site [nucleotide binding]; other site 1196325007544 sequence-specific DNA binding site [nucleotide binding]; other site 1196325007545 AAA domain; Region: AAA_23; pfam13476 1196325007546 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 1196325007547 DNA binding site [nucleotide binding] 1196325007548 active site 1196325007549 Int/Topo IB signature motif; other site 1196325007550 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 1196325007551 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 1196325007552 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1196325007553 non-specific DNA binding site [nucleotide binding]; other site 1196325007554 sequence-specific DNA binding site [nucleotide binding]; other site 1196325007555 salt bridge; other site 1196325007556 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1196325007557 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1196325007558 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1196325007559 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 1196325007560 dimer interface [polypeptide binding]; other site 1196325007561 conserved gate region; other site 1196325007562 putative PBP binding loops; other site 1196325007563 ABC-ATPase subunit interface; other site 1196325007564 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1196325007565 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 1196325007566 dimer interface [polypeptide binding]; other site 1196325007567 conserved gate region; other site 1196325007568 putative PBP binding loops; other site 1196325007569 ABC-ATPase subunit interface; other site 1196325007570 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325007571 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 1196325007572 substrate binding pocket [chemical binding]; other site 1196325007573 membrane-bound complex binding site; other site 1196325007574 hinge residues; other site 1196325007575 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1196325007576 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1196325007577 Walker A/P-loop; other site 1196325007578 ATP binding site [chemical binding]; other site 1196325007579 Q-loop/lid; other site 1196325007580 ABC transporter signature motif; other site 1196325007581 Walker B; other site 1196325007582 D-loop; other site 1196325007583 H-loop/switch region; other site 1196325007584 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1196325007585 oxidative damage protection protein; Provisional; Region: PRK05408 1196325007586 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1196325007587 helix-hairpin-helix signature motif; other site 1196325007588 substrate binding pocket [chemical binding]; other site 1196325007589 active site 1196325007590 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1196325007591 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 1196325007592 DNA binding and oxoG recognition site [nucleotide binding] 1196325007593 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1196325007594 AsmA family; Region: AsmA; pfam05170 1196325007595 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1196325007596 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 1196325007597 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 1196325007598 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1196325007599 putative active site pocket [active] 1196325007600 4-fold oligomerization interface [polypeptide binding]; other site 1196325007601 metal binding residues [ion binding]; metal-binding site 1196325007602 3-fold/trimer interface [polypeptide binding]; other site 1196325007603 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1196325007604 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1196325007605 putative active site [active] 1196325007606 oxyanion strand; other site 1196325007607 catalytic triad [active] 1196325007608 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 1196325007609 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 1196325007610 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1196325007611 catalytic residues [active] 1196325007612 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 1196325007613 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1196325007614 substrate binding site [chemical binding]; other site 1196325007615 glutamase interaction surface [polypeptide binding]; other site 1196325007616 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 1196325007617 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325007618 Walker A/P-loop; other site 1196325007619 ATP binding site [chemical binding]; other site 1196325007620 Q-loop/lid; other site 1196325007621 ABC transporter signature motif; other site 1196325007622 Walker B; other site 1196325007623 D-loop; other site 1196325007624 H-loop/switch region; other site 1196325007625 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 1196325007626 dimer interface [polypeptide binding]; other site 1196325007627 conserved gate region; other site 1196325007628 putative PBP binding loops; other site 1196325007629 ABC-ATPase subunit interface; other site 1196325007630 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1196325007631 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1196325007632 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1196325007633 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1196325007634 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1196325007635 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1196325007636 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1196325007637 conserved cys residue [active] 1196325007638 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325007639 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 1196325007640 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 1196325007641 active site 1196325007642 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 1196325007643 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1196325007644 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196325007645 Uncharacterized conserved protein [Function unknown]; Region: COG3246 1196325007646 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1196325007647 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1196325007648 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1196325007649 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1196325007650 conserved cys residue [active] 1196325007651 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325007652 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1196325007653 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1196325007654 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 1196325007655 active site 1196325007656 V4R domain; Region: V4R; cl15268 1196325007657 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1196325007658 Old yellow enzyme (OYE)-related FMN binding domain, group 3. 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_3_FMN; cd04734 1196325007659 putative active site [active] 1196325007660 putative FMN binding site [chemical binding]; other site 1196325007661 putative substrate binding site [chemical binding]; other site 1196325007662 putative catalytic residue [active] 1196325007663 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 1196325007664 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1196325007665 Cysteine-rich domain; Region: CCG; pfam02754 1196325007666 Cysteine-rich domain; Region: CCG; pfam02754 1196325007667 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 1196325007668 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1196325007669 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 1196325007670 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325007671 homodimer interface [polypeptide binding]; other site 1196325007672 catalytic residue [active] 1196325007673 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 1196325007674 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1196325007675 metal binding triad; other site 1196325007676 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1196325007677 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1196325007678 Zn2+ binding site [ion binding]; other site 1196325007679 Mg2+ binding site [ion binding]; other site 1196325007680 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 1196325007681 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 1196325007682 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 1196325007683 active site 1196325007684 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 1196325007685 rRNA interaction site [nucleotide binding]; other site 1196325007686 S8 interaction site; other site 1196325007687 putative laminin-1 binding site; other site 1196325007688 elongation factor Ts; Provisional; Region: tsf; PRK09377 1196325007689 UBA/TS-N domain; Region: UBA; pfam00627 1196325007690 Elongation factor TS; Region: EF_TS; pfam00889 1196325007691 Elongation factor TS; Region: EF_TS; pfam00889 1196325007692 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 1196325007693 putative nucleotide binding site [chemical binding]; other site 1196325007694 uridine monophosphate binding site [chemical binding]; other site 1196325007695 homohexameric interface [polypeptide binding]; other site 1196325007696 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1196325007697 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 1196325007698 hinge region; other site 1196325007699 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1196325007700 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; cd00475 1196325007701 catalytic residue [active] 1196325007702 putative FPP diphosphate binding site; other site 1196325007703 putative FPP binding hydrophobic cleft; other site 1196325007704 dimer interface [polypeptide binding]; other site 1196325007705 putative IPP diphosphate binding site; other site 1196325007706 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1196325007707 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1196325007708 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1196325007709 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1196325007710 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1196325007711 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1196325007712 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1196325007713 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 1196325007714 active site 1196325007715 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 1196325007716 protein binding site [polypeptide binding]; other site 1196325007717 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 1196325007718 protein binding site [polypeptide binding]; other site 1196325007719 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 1196325007720 putative substrate binding region [chemical binding]; other site 1196325007721 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1196325007722 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325007723 Walker B; other site 1196325007724 D-loop; other site 1196325007725 H-loop/switch region; other site 1196325007726 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1196325007727 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 1196325007728 ABC-ATPase subunit interface; other site 1196325007729 dimer interface [polypeptide binding]; other site 1196325007730 putative PBP binding regions; other site 1196325007731 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1196325007732 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 1196325007733 intersubunit interface [polypeptide binding]; other site 1196325007734 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 1196325007735 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 1196325007736 catalytic triad [active] 1196325007737 conserved cis-peptide bond; other site 1196325007738 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1196325007739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 1196325007740 LysR family transcriptional regulator; Provisional; Region: PRK14997 1196325007741 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325007742 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 1196325007743 putative effector binding pocket; other site 1196325007744 dimerization interface [polypeptide binding]; other site 1196325007745 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1196325007746 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1196325007747 GTPase RsgA; Reviewed; Region: PRK12288 1196325007748 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1196325007749 RNA binding site [nucleotide binding]; other site 1196325007750 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1196325007751 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1196325007752 GTP/Mg2+ binding site [chemical binding]; other site 1196325007753 G4 box; other site 1196325007754 G5 box; other site 1196325007755 G1 box; other site 1196325007756 Switch I region; other site 1196325007757 G2 box; other site 1196325007758 G3 box; other site 1196325007759 Switch II region; other site 1196325007760 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1196325007761 catalytic site [active] 1196325007762 putative active site [active] 1196325007763 putative substrate binding site [chemical binding]; other site 1196325007764 dimer interface [polypeptide binding]; other site 1196325007765 Predicted membrane protein [Function unknown]; Region: COG2860 1196325007766 UPF0126 domain; Region: UPF0126; pfam03458 1196325007767 UPF0126 domain; Region: UPF0126; pfam03458 1196325007768 epoxyqueuosine reductase; Region: TIGR00276 1196325007769 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1196325007770 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 1196325007771 putative ATP binding site [chemical binding]; other site 1196325007772 putative substrate binding site [chemical binding]; other site 1196325007773 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1196325007774 AMIN domain; Region: AMIN; pfam11741 1196325007775 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 1196325007776 active site 1196325007777 metal binding site [ion binding]; metal-binding site 1196325007778 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1196325007779 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1196325007780 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 1196325007781 ATP binding site [chemical binding]; other site 1196325007782 Mg2+ binding site [ion binding]; other site 1196325007783 G-X-G motif; other site 1196325007784 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 1196325007785 ATP binding site [chemical binding]; other site 1196325007786 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1196325007787 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1196325007788 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1196325007789 bacterial Hfq-like; Region: Hfq; cd01716 1196325007790 hexamer interface [polypeptide binding]; other site 1196325007791 Sm1 motif; other site 1196325007792 RNA binding site [nucleotide binding]; other site 1196325007793 Sm2 motif; other site 1196325007794 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1196325007795 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1196325007796 HflX GTPase family; Region: HflX; cd01878 1196325007797 G1 box; other site 1196325007798 GTP/Mg2+ binding site [chemical binding]; other site 1196325007799 Switch I region; other site 1196325007800 G2 box; other site 1196325007801 G3 box; other site 1196325007802 Switch II region; other site 1196325007803 G4 box; other site 1196325007804 G5 box; other site 1196325007805 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1196325007806 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 1196325007807 HflK protein; Region: hflK; TIGR01933 1196325007808 FtsH protease regulator HflC; Provisional; Region: PRK11029 1196325007809 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 1196325007810 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1196325007811 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 1196325007812 dimer interface [polypeptide binding]; other site 1196325007813 motif 1; other site 1196325007814 active site 1196325007815 motif 2; other site 1196325007816 motif 3; other site 1196325007817 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1196325007818 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 1196325007819 GDP-binding site [chemical binding]; other site 1196325007820 ACT binding site; other site 1196325007821 IMP binding site; other site 1196325007822 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 1196325007823 dimerization interface [polypeptide binding]; other site 1196325007824 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325007825 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325007826 dimer interface [polypeptide binding]; other site 1196325007827 putative CheW interface [polypeptide binding]; other site 1196325007828 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 1196325007829 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1196325007830 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 1196325007831 dimer interface [polypeptide binding]; other site 1196325007832 conserved gate region; other site 1196325007833 putative PBP binding loops; other site 1196325007834 ABC-ATPase subunit interface; other site 1196325007835 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1196325007836 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 1196325007837 dimer interface [polypeptide binding]; other site 1196325007838 conserved gate region; other site 1196325007839 putative PBP binding loops; other site 1196325007840 ABC-ATPase subunit interface; other site 1196325007841 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1196325007842 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1196325007843 ribonuclease R; Region: RNase_R; TIGR02063 1196325007844 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1196325007845 RNB domain; Region: RNB; pfam00773 1196325007846 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 1196325007847 RNA binding site [nucleotide binding]; other site 1196325007848 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1196325007849 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1196325007850 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1196325007851 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1196325007852 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1196325007853 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1196325007854 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1196325007855 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1196325007856 replicative DNA helicase; Provisional; Region: PRK05748 1196325007857 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1196325007858 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 1196325007859 Walker A motif; other site 1196325007860 ATP binding site [chemical binding]; other site 1196325007861 Walker B motif; other site 1196325007862 DNA binding loops [nucleotide binding] 1196325007863 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1196325007864 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325007865 Walker A/P-loop; other site 1196325007866 ATP binding site [chemical binding]; other site 1196325007867 Q-loop/lid; other site 1196325007868 ABC transporter signature motif; other site 1196325007869 Walker B; other site 1196325007870 D-loop; other site 1196325007871 H-loop/switch region; other site 1196325007872 YcaO-like family; Region: YcaO; pfam02624 1196325007873 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1196325007874 hypothetical protein; Provisional; Region: PRK01254 1196325007875 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1196325007876 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1196325007877 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1196325007878 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1196325007879 NAD+ synthetase; Region: nadE; TIGR00552 1196325007880 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 1196325007881 homodimer interface [polypeptide binding]; other site 1196325007882 NAD binding pocket [chemical binding]; other site 1196325007883 ATP binding pocket [chemical binding]; other site 1196325007884 Mg binding site [ion binding]; other site 1196325007885 active-site loop [active] 1196325007886 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1196325007887 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 1196325007888 active site 1196325007889 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1196325007890 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 1196325007891 dimerization interface [polypeptide binding]; other site 1196325007892 ligand binding site [chemical binding]; other site 1196325007893 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1196325007894 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 1196325007895 TM-ABC transporter signature motif; other site 1196325007896 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1196325007897 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1196325007898 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 1196325007899 TM-ABC transporter signature motif; other site 1196325007900 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1196325007901 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1196325007902 Walker A/P-loop; other site 1196325007903 ATP binding site [chemical binding]; other site 1196325007904 Q-loop/lid; other site 1196325007905 ABC transporter signature motif; other site 1196325007906 Walker B; other site 1196325007907 D-loop; other site 1196325007908 H-loop/switch region; other site 1196325007909 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1196325007910 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1196325007911 Walker A/P-loop; other site 1196325007912 ATP binding site [chemical binding]; other site 1196325007913 Q-loop/lid; other site 1196325007914 ABC transporter signature motif; other site 1196325007915 Walker B; other site 1196325007916 D-loop; other site 1196325007917 H-loop/switch region; other site 1196325007918 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1196325007919 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1196325007920 putative NAD(P) binding site [chemical binding]; other site 1196325007921 homotetramer interface [polypeptide binding]; other site 1196325007922 homodimer interface [polypeptide binding]; other site 1196325007923 active site 1196325007924 dimerization interface [polypeptide binding]; other site 1196325007925 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 1196325007926 putative active cleft [active] 1196325007927 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1196325007928 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325007929 Secretin and TonB N terminus short domain; Region: STN; smart00965 1196325007930 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1196325007931 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 1196325007932 N-terminal plug; other site 1196325007933 ligand-binding site [chemical binding]; other site 1196325007934 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1196325007935 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1196325007936 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 1196325007937 active site 1196325007938 ATP binding site [chemical binding]; other site 1196325007939 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1196325007940 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1196325007941 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1196325007942 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 1196325007943 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196325007944 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 1196325007945 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1196325007946 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 1196325007947 putative active site [active] 1196325007948 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1196325007949 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 1196325007950 putative active site [active] 1196325007951 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1196325007952 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1196325007953 metal binding triad; other site 1196325007954 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1196325007955 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1196325007956 metal binding triad; other site 1196325007957 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1196325007958 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1196325007959 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 1196325007960 dimer interface [polypeptide binding]; other site 1196325007961 TPP-binding site [chemical binding]; other site 1196325007962 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 1196325007963 E3 interaction surface; other site 1196325007964 lipoyl attachment site [posttranslational modification]; other site 1196325007965 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325007966 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325007967 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 1196325007968 dimerization interface [polypeptide binding]; other site 1196325007969 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1196325007970 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1196325007971 putative active site [active] 1196325007972 metal binding site [ion binding]; metal-binding site 1196325007973 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 1196325007974 D-galactonate transporter; Region: 2A0114; TIGR00893 1196325007975 putative substrate translocation pore; other site 1196325007976 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1196325007977 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 1196325007978 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1196325007979 non-specific DNA binding site [nucleotide binding]; other site 1196325007980 salt bridge; other site 1196325007981 sequence-specific DNA binding site [nucleotide binding]; other site 1196325007982 MAPEG family; Region: MAPEG; pfam01124 1196325007983 phosphate ABC transporter, phosphate-binding protein; Region: 3a0107s03; TIGR00975 1196325007984 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 1196325007985 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 1196325007986 dimer interface [polypeptide binding]; other site 1196325007987 conserved gate region; other site 1196325007988 putative PBP binding loops; other site 1196325007989 ABC-ATPase subunit interface; other site 1196325007990 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 1196325007991 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 1196325007992 dimer interface [polypeptide binding]; other site 1196325007993 conserved gate region; other site 1196325007994 putative PBP binding loops; other site 1196325007995 ABC-ATPase subunit interface; other site 1196325007996 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14263 1196325007997 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1196325007998 Walker A/P-loop; other site 1196325007999 ATP binding site [chemical binding]; other site 1196325008000 Q-loop/lid; other site 1196325008001 ABC transporter signature motif; other site 1196325008002 Walker B; other site 1196325008003 D-loop; other site 1196325008004 H-loop/switch region; other site 1196325008005 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; cl17915 1196325008006 active site 1196325008007 motif I; other site 1196325008008 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1196325008009 motif II; other site 1196325008010 Gram-negative porin; Region: Porin_4; pfam13609 1196325008011 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1196325008012 FIST N domain; Region: FIST; pfam08495 1196325008013 FIST C domain; Region: FIST_C; pfam10442 1196325008014 PAS fold; Region: PAS; pfam00989 1196325008015 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 1196325008016 putative active site [active] 1196325008017 heme pocket [chemical binding]; other site 1196325008018 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325008019 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 1196325008020 dimer interface [polypeptide binding]; other site 1196325008021 phosphorylation site [posttranslational modification] 1196325008022 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 1196325008023 ATP binding site [chemical binding]; other site 1196325008024 Mg2+ binding site [ion binding]; other site 1196325008025 G-X-G motif; other site 1196325008026 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196325008027 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 1196325008028 active site 1196325008029 phosphorylation site [posttranslational modification] 1196325008030 intermolecular recognition site; other site 1196325008031 dimerization interface [polypeptide binding]; other site 1196325008032 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196325008033 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 1196325008034 active site 1196325008035 phosphorylation site [posttranslational modification] 1196325008036 intermolecular recognition site; other site 1196325008037 dimerization interface [polypeptide binding]; other site 1196325008038 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 1196325008039 DNA binding residues [nucleotide binding] 1196325008040 dimerization interface [polypeptide binding]; other site 1196325008041 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 1196325008042 active site residue [active] 1196325008043 alcohol ABC transporter, permease protein; Region: phenyl_ABC_PedC; TIGR03861 1196325008044 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1196325008045 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1196325008046 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325008047 Walker A/P-loop; other site 1196325008048 ATP binding site [chemical binding]; other site 1196325008049 Q-loop/lid; other site 1196325008050 ABC transporter signature motif; other site 1196325008051 Walker B; other site 1196325008052 D-loop; other site 1196325008053 H-loop/switch region; other site 1196325008054 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1196325008055 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1196325008056 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1196325008057 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1196325008058 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1196325008059 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 1196325008060 ligand binding site [chemical binding]; other site 1196325008061 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 1196325008062 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1196325008063 Histidine kinase; Region: HisKA_3; pfam07730 1196325008064 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 1196325008065 ATP binding site [chemical binding]; other site 1196325008066 Mg2+ binding site [ion binding]; other site 1196325008067 G-X-G motif; other site 1196325008068 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196325008069 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 1196325008070 active site 1196325008071 phosphorylation site [posttranslational modification] 1196325008072 intermolecular recognition site; other site 1196325008073 dimerization interface [polypeptide binding]; other site 1196325008074 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 1196325008075 DNA binding residues [nucleotide binding] 1196325008076 dimerization interface [polypeptide binding]; other site 1196325008077 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1196325008078 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1196325008079 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1196325008080 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1196325008081 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1196325008082 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1196325008083 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1196325008084 dimer interface [polypeptide binding]; other site 1196325008085 Trp docking motif [polypeptide binding]; other site 1196325008086 active site 1196325008087 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1196325008088 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 1196325008089 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325008090 substrate binding pocket [chemical binding]; other site 1196325008091 membrane-bound complex binding site; other site 1196325008092 hinge residues; other site 1196325008093 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 1196325008094 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 1196325008095 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1196325008096 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1196325008097 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1196325008098 dimer interface [polypeptide binding]; other site 1196325008099 Trp docking motif [polypeptide binding]; other site 1196325008100 active site 1196325008101 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II and Staphylococcus aureus AldA1 (SACOL0154)-like; Region: ALDH_ACDHII_AcoD-like; cd07559 1196325008102 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1196325008103 NAD(P) binding site [chemical binding]; other site 1196325008104 catalytic residues [active] 1196325008105 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 1196325008106 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 1196325008107 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1196325008108 putative active site [active] 1196325008109 metal binding site [ion binding]; metal-binding site 1196325008110 PAS domain; Region: PAS_8; pfam13188 1196325008111 PAS domain S-box; Region: sensory_box; TIGR00229 1196325008112 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325008113 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 1196325008114 dimer interface [polypeptide binding]; other site 1196325008115 phosphorylation site [posttranslational modification] 1196325008116 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 1196325008117 ATP binding site [chemical binding]; other site 1196325008118 Mg2+ binding site [ion binding]; other site 1196325008119 G-X-G motif; other site 1196325008120 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196325008121 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 1196325008122 active site 1196325008123 phosphorylation site [posttranslational modification] 1196325008124 intermolecular recognition site; other site 1196325008125 dimerization interface [polypeptide binding]; other site 1196325008126 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 1196325008127 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1196325008128 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196325008129 catalytic residue [active] 1196325008130 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 1196325008131 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 1196325008132 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1196325008133 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1196325008134 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1196325008135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1196325008136 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1196325008137 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1196325008138 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 1196325008139 homotrimer interaction site [polypeptide binding]; other site 1196325008140 putative active site [active] 1196325008141 Protein of unknown function (DUF3726); Region: DUF3726; pfam12525 1196325008142 BCCT family transporter; Region: BCCT; pfam02028 1196325008143 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1196325008144 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 1196325008145 active site 1196325008146 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1196325008147 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1196325008148 NAD(P) binding site [chemical binding]; other site 1196325008149 catalytic residues [active] 1196325008150 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325008151 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325008152 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 1196325008153 putative dimerization interface [polypeptide binding]; other site 1196325008154 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1196325008155 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325008156 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 1196325008157 putative dimerization interface [polypeptide binding]; other site 1196325008158 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1196325008159 methionine synthase; Provisional; Region: PRK01207 1196325008160 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 1196325008161 substrate binding site [chemical binding]; other site 1196325008162 THF binding site; other site 1196325008163 zinc-binding site [ion binding]; other site 1196325008164 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 1196325008165 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 1196325008166 catalytic triad [active] 1196325008167 dimer interface [polypeptide binding]; other site 1196325008168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325008169 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325008170 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 1196325008171 dimerization interface [polypeptide binding]; other site 1196325008172 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 1196325008173 trimer interface [polypeptide binding]; other site 1196325008174 eyelet of channel; other site 1196325008175 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1196325008176 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 1196325008177 metabolite-proton symporter; Region: 2A0106; TIGR00883 1196325008178 putative substrate translocation pore; other site 1196325008179 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1196325008180 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1196325008181 metal binding site [ion binding]; metal-binding site 1196325008182 putative dimer interface [polypeptide binding]; other site 1196325008183 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 1196325008184 putative catalytic site [active] 1196325008185 putative phosphate binding site [ion binding]; other site 1196325008186 active site 1196325008187 metal binding site A [ion binding]; metal-binding site 1196325008188 DNA binding site [nucleotide binding] 1196325008189 putative AP binding site [nucleotide binding]; other site 1196325008190 putative metal binding site B [ion binding]; other site 1196325008191 Thermostable hemolysin; Region: T_hemolysin; pfam12261 1196325008192 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1196325008193 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 1196325008194 acyl-activating enzyme (AAE) consensus motif; other site 1196325008195 putative AMP binding site [chemical binding]; other site 1196325008196 putative active site [active] 1196325008197 putative CoA binding site [chemical binding]; other site 1196325008198 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 1196325008199 heme binding pocket [chemical binding]; other site 1196325008200 heme ligand [chemical binding]; other site 1196325008201 short chain dehydrogenase; Provisional; Region: PRK09072 1196325008202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325008203 NAD(P) binding site [chemical binding]; other site 1196325008204 active site 1196325008205 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 1196325008206 TPR motif; other site 1196325008207 binding surface 1196325008208 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1196325008209 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 1196325008210 active site 1196325008211 phosphorylation site [posttranslational modification] 1196325008212 intermolecular recognition site; other site 1196325008213 dimerization interface [polypeptide binding]; other site 1196325008214 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 1196325008215 DNA binding site [nucleotide binding] 1196325008216 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1196325008217 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 1196325008218 dimer interface [polypeptide binding]; other site 1196325008219 phosphorylation site [posttranslational modification] 1196325008220 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 1196325008221 ATP binding site [chemical binding]; other site 1196325008222 Mg2+ binding site [ion binding]; other site 1196325008223 G-X-G motif; other site 1196325008224 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 1196325008225 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1196325008226 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1196325008227 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1196325008228 active site 1196325008229 arsenical pump membrane protein; Provisional; Region: PRK15445 1196325008230 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 1196325008231 transmembrane helices; other site 1196325008232 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 1196325008233 dimerization interface [polypeptide binding]; other site 1196325008234 putative DNA binding site [nucleotide binding]; other site 1196325008235 putative Zn2+ binding site [ion binding]; other site 1196325008236 short chain dehydrogenase; Provisional; Region: PRK06701 1196325008237 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1196325008238 NAD binding site [chemical binding]; other site 1196325008239 metal binding site [ion binding]; metal-binding site 1196325008240 active site 1196325008241 Predicted membrane protein [Function unknown]; Region: COG2323 1196325008242 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1196325008243 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1196325008244 NADP binding site [chemical binding]; other site 1196325008245 homodimer interface [polypeptide binding]; other site 1196325008246 active site 1196325008247 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 1196325008248 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 1196325008249 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 1196325008250 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 1196325008251 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 1196325008252 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1196325008253 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 1196325008254 S-adenosylmethionine binding site [chemical binding]; other site 1196325008255 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 1196325008256 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 1196325008257 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196325008258 short chain dehydrogenase; Provisional; Region: PRK06101 1196325008259 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325008260 NAD(P) binding site [chemical binding]; other site 1196325008261 active site 1196325008262 SnoaL-like domain; Region: SnoaL_2; pfam12680 1196325008263 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 1196325008264 PAS domain; Region: PAS_9; pfam13426 1196325008265 putative active site [active] 1196325008266 heme pocket [chemical binding]; other site 1196325008267 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1196325008268 DNA binding residues [nucleotide binding] 1196325008269 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1196325008270 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1196325008271 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1196325008272 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1196325008273 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1196325008274 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325008275 Coenzyme A binding pocket [chemical binding]; other site 1196325008276 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 1196325008277 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1196325008278 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196325008279 active site 1196325008280 universal stress protein UspE; Provisional; Region: PRK11175 1196325008281 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 1196325008282 Ligand Binding Site [chemical binding]; other site 1196325008283 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 1196325008284 Ligand Binding Site [chemical binding]; other site 1196325008285 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 1196325008286 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1196325008287 active site 1196325008288 non-prolyl cis peptide bond; other site 1196325008289 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1196325008290 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1196325008291 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1196325008292 Walker A/P-loop; other site 1196325008293 ATP binding site [chemical binding]; other site 1196325008294 Q-loop/lid; other site 1196325008295 ABC transporter signature motif; other site 1196325008296 Walker B; other site 1196325008297 D-loop; other site 1196325008298 H-loop/switch region; other site 1196325008299 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1196325008300 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 1196325008301 TM-ABC transporter signature motif; other site 1196325008302 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1196325008303 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 1196325008304 TM-ABC transporter signature motif; other site 1196325008305 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 1196325008306 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1196325008307 putative ligand binding site [chemical binding]; other site 1196325008308 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 1196325008309 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1196325008310 putative ligand binding site [chemical binding]; other site 1196325008311 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1196325008312 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1196325008313 Walker A/P-loop; other site 1196325008314 ATP binding site [chemical binding]; other site 1196325008315 Q-loop/lid; other site 1196325008316 ABC transporter signature motif; other site 1196325008317 Walker B; other site 1196325008318 D-loop; other site 1196325008319 H-loop/switch region; other site 1196325008320 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1196325008321 Isochorismatase family; Region: Isochorismatase; pfam00857 1196325008322 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 1196325008323 catalytic triad [active] 1196325008324 dimer interface [polypeptide binding]; other site 1196325008325 conserved cis-peptide bond; other site 1196325008326 LysR family transcriptional regulator; Provisional; Region: PRK14997 1196325008327 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325008328 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 1196325008329 putative effector binding pocket; other site 1196325008330 putative dimerization interface [polypeptide binding]; other site 1196325008331 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325008332 Transmembrane secretion effector; Region: MFS_3; pfam05977 1196325008333 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 1196325008334 putative substrate translocation pore; other site 1196325008335 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1196325008336 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 1196325008337 active site 1196325008338 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1196325008339 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1196325008340 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1196325008341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 1196325008342 Isochorismatase family; Region: Isochorismatase; pfam00857 1196325008343 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 1196325008344 catalytic triad [active] 1196325008345 dimer interface [polypeptide binding]; other site 1196325008346 conserved cis-peptide bond; other site 1196325008347 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1196325008348 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1196325008349 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1196325008350 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 1196325008351 ligand binding site [chemical binding]; other site 1196325008352 flexible hinge region; other site 1196325008353 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1196325008354 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1196325008355 aldehyde dehydrogenase family 7 member; Region: PLN02315 1196325008356 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1196325008357 tetrameric interface [polypeptide binding]; other site 1196325008358 NAD binding site [chemical binding]; other site 1196325008359 catalytic residues [active] 1196325008360 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325008361 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1196325008362 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 1196325008363 dimerization interface [polypeptide binding]; other site 1196325008364 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1196325008365 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1196325008366 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1196325008367 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325008368 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 1196325008369 dimerization interface [polypeptide binding]; other site 1196325008370 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1196325008371 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1196325008372 cation binding site [ion binding]; other site 1196325008373 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325008374 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325008375 metal binding site [ion binding]; metal-binding site 1196325008376 active site 1196325008377 I-site; other site 1196325008378 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 1196325008379 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1196325008380 Part of AAA domain; Region: AAA_19; pfam13245 1196325008381 Family description; Region: UvrD_C_2; pfam13538 1196325008382 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196325008383 active site 1196325008384 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1196325008385 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1196325008386 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1196325008387 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1196325008388 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1196325008389 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 1196325008390 non-specific DNA binding site [nucleotide binding]; other site 1196325008391 salt bridge; other site 1196325008392 sequence-specific DNA binding site [nucleotide binding]; other site 1196325008393 Cupin domain; Region: Cupin_2; pfam07883 1196325008394 alanine racemase; Reviewed; Region: dadX; PRK03646 1196325008395 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1196325008396 active site 1196325008397 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1196325008398 substrate binding site [chemical binding]; other site 1196325008399 catalytic residues [active] 1196325008400 dimer interface [polypeptide binding]; other site 1196325008401 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1196325008402 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1196325008403 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1196325008404 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1196325008405 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 1196325008406 putative DNA binding site [nucleotide binding]; other site 1196325008407 putative Zn2+ binding site [ion binding]; other site 1196325008408 AsnC family; Region: AsnC_trans_reg; pfam01037 1196325008409 Flagellin N-methylase; Region: FliB; pfam03692 1196325008410 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1196325008411 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1196325008412 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1196325008413 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 1196325008414 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325008415 DNA-binding site [nucleotide binding]; DNA binding site 1196325008416 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 1196325008417 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325008418 homodimer interface [polypeptide binding]; other site 1196325008419 catalytic residue [active] 1196325008420 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1196325008421 PLD-like domain; Region: PLDc_2; pfam13091 1196325008422 putative active site [active] 1196325008423 catalytic site [active] 1196325008424 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1196325008425 PLD-like domain; Region: PLDc_2; pfam13091 1196325008426 putative active site [active] 1196325008427 catalytic site [active] 1196325008428 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1196325008429 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1196325008430 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1196325008431 NAD(P) binding site [chemical binding]; other site 1196325008432 catalytic residues [active] 1196325008433 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1196325008434 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cl00700 1196325008435 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1196325008436 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1196325008437 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1196325008438 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1196325008439 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1196325008440 peptide binding site [polypeptide binding]; other site 1196325008441 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 1196325008442 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1196325008443 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 1196325008444 active site 1196325008445 catalytic residues [active] 1196325008446 Int/Topo IB signature motif; other site 1196325008447 DNA binding site [nucleotide binding] 1196325008448 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 1196325008449 active site 1196325008450 catalytic residues [active] 1196325008451 DNA binding site [nucleotide binding] 1196325008452 Int/Topo IB signature motif; other site 1196325008453 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 1196325008454 Predicted acyl esterases [General function prediction only]; Region: COG2936 1196325008455 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 1196325008456 Predicted membrane protein [Function unknown]; Region: COG1288 1196325008457 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 1196325008458 dimerization interface [polypeptide binding]; other site 1196325008459 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325008460 putative metal dependent hydrolase; Provisional; Region: PRK11598 1196325008461 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1196325008462 Sulfatase; Region: Sulfatase; pfam00884 1196325008463 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1196325008464 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1196325008465 hypothetical protein; Provisional; Region: PRK09272 1196325008466 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1196325008467 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1196325008468 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 1196325008469 active site 1196325008470 phosphorylation site [posttranslational modification] 1196325008471 intermolecular recognition site; other site 1196325008472 dimerization interface [polypeptide binding]; other site 1196325008473 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 1196325008474 DNA binding site [nucleotide binding] 1196325008475 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1196325008476 HAMP domain; Region: HAMP; pfam00672 1196325008477 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 1196325008478 dimer interface [polypeptide binding]; other site 1196325008479 phosphorylation site [posttranslational modification] 1196325008480 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 1196325008481 ATP binding site [chemical binding]; other site 1196325008482 Mg2+ binding site [ion binding]; other site 1196325008483 G-X-G motif; other site 1196325008484 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1196325008485 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1196325008486 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1196325008487 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1196325008488 Ligand binding site; other site 1196325008489 Putative Catalytic site; other site 1196325008490 DXD motif; other site 1196325008491 Membrane protein of unknown function; Region: DUF360; pfam04020 1196325008492 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325008493 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325008494 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1196325008495 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 1196325008496 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1196325008497 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1196325008498 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1196325008499 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 1196325008500 motif II; other site 1196325008501 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1196325008502 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1196325008503 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1196325008504 Trp docking motif [polypeptide binding]; other site 1196325008505 putative active site [active] 1196325008506 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 1196325008507 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1196325008508 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 1196325008509 N-terminal plug; other site 1196325008510 ligand-binding site [chemical binding]; other site 1196325008511 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 1196325008512 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1196325008513 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1196325008514 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1196325008515 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1196325008516 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1196325008517 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1196325008518 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1196325008519 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1196325008520 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1196325008521 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1196325008522 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1196325008523 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 1196325008524 nudix motif; other site 1196325008525 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 1196325008526 putative active site [active] 1196325008527 putative CoA binding site [chemical binding]; other site 1196325008528 nudix motif; other site 1196325008529 metal binding site [ion binding]; metal-binding site 1196325008530 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1196325008531 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 1196325008532 trimer interface [polypeptide binding]; other site 1196325008533 putative metal binding site [ion binding]; other site 1196325008534 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1196325008535 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 1196325008536 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1196325008537 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325008538 ATP-grasp domain; Region: ATP-grasp; pfam02222 1196325008539 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 1196325008540 metabolite-proton symporter; Region: 2A0106; TIGR00883 1196325008541 putative substrate translocation pore; other site 1196325008542 FOG: CBS domain [General function prediction only]; Region: COG0517 1196325008543 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 1196325008544 Transporter associated domain; Region: CorC_HlyC; smart01091 1196325008545 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 1196325008546 signal recognition particle protein; Provisional; Region: PRK10867 1196325008547 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1196325008548 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 1196325008549 P loop; other site 1196325008550 GTP binding site [chemical binding]; other site 1196325008551 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1196325008552 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1196325008553 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1196325008554 RimM N-terminal domain; Region: RimM; pfam01782 1196325008555 PRC-barrel domain; Region: PRC; pfam05239 1196325008556 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1196325008557 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1196325008558 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 1196325008559 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1196325008560 TrkA-N domain; Region: TrkA_N; pfam02254 1196325008561 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1196325008562 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 1196325008563 active site 1196325008564 Int/Topo IB signature motif; other site 1196325008565 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 1196325008566 dimerization domain [polypeptide binding]; other site 1196325008567 dimer interface [polypeptide binding]; other site 1196325008568 catalytic residues [active] 1196325008569 homoserine dehydrogenase; Provisional; Region: PRK06349 1196325008570 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1196325008571 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1196325008572 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 1196325008573 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1196325008574 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 1196325008575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325008576 catalytic residue [active] 1196325008577 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325008578 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1196325008579 conserved hypothetical protein; Region: TIGR02285 1196325008580 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1196325008581 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1196325008582 YaeQ protein; Region: YaeQ; pfam07152 1196325008583 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1196325008584 DHH family; Region: DHH; pfam01368 1196325008585 DHHA1 domain; Region: DHHA1; pfam02272 1196325008586 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1196325008587 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 1196325008588 active site 1196325008589 FMN binding site [chemical binding]; other site 1196325008590 substrate binding site [chemical binding]; other site 1196325008591 homotetramer interface [polypeptide binding]; other site 1196325008592 catalytic residue [active] 1196325008593 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1196325008594 HicB family; Region: HicB; pfam05534 1196325008595 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 1196325008596 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 1196325008597 tetrameric interface [polypeptide binding]; other site 1196325008598 NAD binding site [chemical binding]; other site 1196325008599 catalytic residues [active] 1196325008600 substrate binding site [chemical binding]; other site 1196325008601 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1196325008602 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 1196325008603 dimer interface [polypeptide binding]; other site 1196325008604 conserved gate region; other site 1196325008605 ABC-ATPase subunit interface; other site 1196325008606 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 1196325008607 conserved gate region; other site 1196325008608 dimer interface [polypeptide binding]; other site 1196325008609 putative PBP binding loops; other site 1196325008610 ABC-ATPase subunit interface; other site 1196325008611 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1196325008612 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325008613 Walker A/P-loop; other site 1196325008614 ATP binding site [chemical binding]; other site 1196325008615 Q-loop/lid; other site 1196325008616 ABC transporter signature motif; other site 1196325008617 Walker B; other site 1196325008618 D-loop; other site 1196325008619 H-loop/switch region; other site 1196325008620 TOBE domain; Region: TOBE_2; pfam08402 1196325008621 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1196325008622 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1196325008623 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 1196325008624 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1196325008625 putative metal binding site [ion binding]; other site 1196325008626 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1196325008627 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 1196325008628 dimerization interface [polypeptide binding]; other site 1196325008629 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325008630 dimer interface [polypeptide binding]; other site 1196325008631 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1196325008632 putative CheW interface [polypeptide binding]; other site 1196325008633 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1196325008634 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1196325008635 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1196325008636 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 1196325008637 S-adenosylmethionine binding site [chemical binding]; other site 1196325008638 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 1196325008639 TPR motif; other site 1196325008640 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 1196325008641 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 1196325008642 putative binding surface; other site 1196325008643 active site 1196325008644 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1196325008645 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 1196325008646 ATP binding site [chemical binding]; other site 1196325008647 Mg2+ binding site [ion binding]; other site 1196325008648 G-X-G motif; other site 1196325008649 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 1196325008650 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325008651 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 1196325008652 active site 1196325008653 phosphorylation site [posttranslational modification] 1196325008654 intermolecular recognition site; other site 1196325008655 dimerization interface [polypeptide binding]; other site 1196325008656 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 1196325008657 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 1196325008658 active site 1196325008659 phosphorylation site [posttranslational modification] 1196325008660 intermolecular recognition site; other site 1196325008661 CheB methylesterase; Region: CheB_methylest; pfam01339 1196325008662 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325008663 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 1196325008664 active site 1196325008665 phosphorylation site [posttranslational modification] 1196325008666 intermolecular recognition site; other site 1196325008667 dimerization interface [polypeptide binding]; other site 1196325008668 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325008669 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325008670 metal binding site [ion binding]; metal-binding site 1196325008671 active site 1196325008672 I-site; other site 1196325008673 peptide chain release factor 2; Provisional; Region: PRK08787 1196325008674 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1196325008675 RF-1 domain; Region: RF-1; pfam00472 1196325008676 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1196325008677 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 1196325008678 dimer interface [polypeptide binding]; other site 1196325008679 putative anticodon binding site; other site 1196325008680 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 1196325008681 motif 1; other site 1196325008682 active site 1196325008683 motif 2; other site 1196325008684 motif 3; other site 1196325008685 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 1196325008686 conserved hypothetical protein; Region: QEGLA; TIGR02421 1196325008687 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1196325008688 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1196325008689 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196325008690 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196325008691 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196325008692 ligand binding site [chemical binding]; other site 1196325008693 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1196325008694 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1196325008695 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 1196325008696 catalytic residues [active] 1196325008697 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1196325008698 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1196325008699 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 1196325008700 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 1196325008701 Magnesium ion binding site [ion binding]; other site 1196325008702 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1196325008703 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 1196325008704 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1196325008705 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1196325008706 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1196325008707 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1196325008708 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1196325008709 adenylate kinase; Reviewed; Region: adk; PRK00279 1196325008710 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 1196325008711 AMP-binding site [chemical binding]; other site 1196325008712 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1196325008713 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1196325008714 Glycoprotease family; Region: Peptidase_M22; pfam00814 1196325008715 Protein of unknown function DUF72; Region: DUF72; cl00777 1196325008716 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 1196325008717 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1196325008718 tetramer interface [polypeptide binding]; other site 1196325008719 active site 1196325008720 Mg2+/Mn2+ binding site [ion binding]; other site 1196325008721 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1196325008722 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 1196325008723 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196325008724 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325008725 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1196325008726 threonine and homoserine efflux system; Provisional; Region: PRK10532 1196325008727 EamA-like transporter family; Region: EamA; cl17759 1196325008728 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1196325008729 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1196325008730 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 1196325008731 active site 1196325008732 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 1196325008733 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196325008734 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1196325008735 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1196325008736 conserved cys residue [active] 1196325008737 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325008738 Isochorismatase family; Region: Isochorismatase; pfam00857 1196325008739 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 1196325008740 catalytic triad [active] 1196325008741 conserved cis-peptide bond; other site 1196325008742 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 1196325008743 non-specific DNA binding site [nucleotide binding]; other site 1196325008744 salt bridge; other site 1196325008745 sequence-specific DNA binding site [nucleotide binding]; other site 1196325008746 Cupin domain; Region: Cupin_2; pfam07883 1196325008747 EamA-like transporter family; Region: EamA; pfam00892 1196325008748 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1196325008749 EamA-like transporter family; Region: EamA; cl17759 1196325008750 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1196325008751 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1196325008752 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1196325008753 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1196325008754 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 1196325008755 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1196325008756 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1196325008757 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1196325008758 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1196325008759 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1196325008760 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 1196325008761 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1196325008762 dihydroorotase; Validated; Region: pyrC; PRK09357 1196325008763 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1196325008764 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1196325008765 dimerization interface [polypeptide binding]; other site 1196325008766 DPS ferroxidase diiron center [ion binding]; other site 1196325008767 ion pore; other site 1196325008768 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 1196325008769 DNA-binding site [nucleotide binding]; DNA binding site 1196325008770 RNA-binding motif; other site 1196325008771 hypothetical protein; Provisional; Region: PRK00295 1196325008772 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1196325008773 nucleotide binding site/active site [active] 1196325008774 HIT family signature motif; other site 1196325008775 catalytic residue [active] 1196325008776 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325008777 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1196325008778 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 1196325008779 dimer interface [polypeptide binding]; other site 1196325008780 motif 1; other site 1196325008781 active site 1196325008782 motif 2; other site 1196325008783 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 1196325008784 putative deacylase active site [active] 1196325008785 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 1196325008786 active site 1196325008787 motif 3; other site 1196325008788 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 1196325008789 anticodon binding site; other site 1196325008790 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1196325008791 active site 1196325008792 DNA polymerase IV; Validated; Region: PRK02406 1196325008793 DNA binding site [nucleotide binding] 1196325008794 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1196325008795 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_ATP; cd00484 1196325008796 active site 1196325008797 substrate-binding site [chemical binding]; other site 1196325008798 metal-binding site [ion binding] 1196325008799 ATP binding site [chemical binding]; other site 1196325008800 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1196325008801 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 1196325008802 dimerization interface [polypeptide binding]; other site 1196325008803 domain crossover interface; other site 1196325008804 redox-dependent activation switch; other site 1196325008805 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; cd01610 1196325008806 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1196325008807 active site 1196325008808 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 1196325008809 RNA binding surface [nucleotide binding]; other site 1196325008810 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1196325008811 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1196325008812 RimK-like ATP-grasp domain; Region: RimK; pfam08443 1196325008813 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1196325008814 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 1196325008815 dimerization interface [polypeptide binding]; other site 1196325008816 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 1196325008817 ATP binding site [chemical binding]; other site 1196325008818 Mg2+ binding site [ion binding]; other site 1196325008819 G-X-G motif; other site 1196325008820 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1196325008821 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 1196325008822 active site 1196325008823 phosphorylation site [posttranslational modification] 1196325008824 intermolecular recognition site; other site 1196325008825 dimerization interface [polypeptide binding]; other site 1196325008826 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 1196325008827 DNA binding site [nucleotide binding] 1196325008828 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1196325008829 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1196325008830 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1196325008831 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 1196325008832 RNA binding site [nucleotide binding]; other site 1196325008833 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 1196325008834 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1196325008835 CoenzymeA binding site [chemical binding]; other site 1196325008836 subunit interaction site [polypeptide binding]; other site 1196325008837 PHB binding site; other site 1196325008838 glutamate--cysteine ligase; Provisional; Region: PRK02107 1196325008839 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196325008840 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325008841 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1196325008842 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 1196325008843 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1196325008844 Walker A/P-loop; other site 1196325008845 ATP binding site [chemical binding]; other site 1196325008846 Q-loop/lid; other site 1196325008847 ABC transporter signature motif; other site 1196325008848 Walker B; other site 1196325008849 D-loop; other site 1196325008850 H-loop/switch region; other site 1196325008851 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1196325008852 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 1196325008853 dimer interface [polypeptide binding]; other site 1196325008854 conserved gate region; other site 1196325008855 putative PBP binding loops; other site 1196325008856 ABC-ATPase subunit interface; other site 1196325008857 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1196325008858 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 1196325008859 active site 1196325008860 dimer interface [polypeptide binding]; other site 1196325008861 non-prolyl cis peptide bond; other site 1196325008862 insertion regions; other site 1196325008863 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1196325008864 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 1196325008865 substrate binding pocket [chemical binding]; other site 1196325008866 membrane-bound complex binding site; other site 1196325008867 hinge residues; other site 1196325008868 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1196325008869 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 1196325008870 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1196325008871 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 1196325008872 dimer interface [polypeptide binding]; other site 1196325008873 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1196325008874 catalytic triad [active] 1196325008875 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325008876 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1196325008877 extended (e) SDRs; Region: SDR_e; cd08946 1196325008878 active site 1196325008879 active site 1196325008880 substrate binding site [chemical binding]; other site 1196325008881 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1196325008882 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1196325008883 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1196325008884 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1196325008885 DctM-like transporters; Region: DctM; pfam06808 1196325008886 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1196325008887 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 1196325008888 active site 1196325008889 catalytic residues [active] 1196325008890 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325008891 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325008892 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 1196325008893 putative effector binding pocket; other site 1196325008894 putative dimerization interface [polypeptide binding]; other site 1196325008895 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1196325008896 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1196325008897 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1196325008898 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 1196325008899 FAD binding pocket [chemical binding]; other site 1196325008900 FAD binding motif [chemical binding]; other site 1196325008901 phosphate binding motif [ion binding]; other site 1196325008902 beta-alpha-beta structure motif; other site 1196325008903 NAD binding pocket [chemical binding]; other site 1196325008904 Heme binding pocket [chemical binding]; other site 1196325008905 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1196325008906 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 1196325008907 catalytic loop [active] 1196325008908 iron binding site [ion binding]; other site 1196325008909 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196325008910 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 1196325008911 putative C-terminal domain interface [polypeptide binding]; other site 1196325008912 putative GSH binding site (G-site) [chemical binding]; other site 1196325008913 putative dimer interface [polypeptide binding]; other site 1196325008914 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1196325008915 putative N-terminal domain interface [polypeptide binding]; other site 1196325008916 putative dimer interface [polypeptide binding]; other site 1196325008917 putative substrate binding pocket (H-site) [chemical binding]; other site 1196325008918 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1196325008919 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1196325008920 active site 1196325008921 homotetramer interface [polypeptide binding]; other site 1196325008922 homodimer interface [polypeptide binding]; other site 1196325008923 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1196325008924 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 1196325008925 putative active site [active] 1196325008926 catalytic triad [active] 1196325008927 putative dimer interface [polypeptide binding]; other site 1196325008928 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196325008929 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1196325008930 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1196325008931 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 1196325008932 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1196325008933 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1196325008934 EamA-like transporter family; Region: EamA; pfam00892 1196325008935 fumarate hydratase; Provisional; Region: PRK12425 1196325008936 Class II fumarases; Region: Fumarase_classII; cd01362 1196325008937 active site 1196325008938 tetramer interface [polypeptide binding]; other site 1196325008939 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 1196325008940 BolA-like protein; Region: BolA; pfam01722 1196325008941 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1196325008942 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1196325008943 active site residue [active] 1196325008944 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1196325008945 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 1196325008946 catalytic residues [active] 1196325008947 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1196325008948 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325008949 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1196325008950 Walker A/P-loop; other site 1196325008951 ATP binding site [chemical binding]; other site 1196325008952 Q-loop/lid; other site 1196325008953 ABC transporter signature motif; other site 1196325008954 Walker B; other site 1196325008955 D-loop; other site 1196325008956 H-loop/switch region; other site 1196325008957 PAS domain S-box; Region: sensory_box; TIGR00229 1196325008958 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 1196325008959 putative active site [active] 1196325008960 heme pocket [chemical binding]; other site 1196325008961 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325008962 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325008963 metal binding site [ion binding]; metal-binding site 1196325008964 active site 1196325008965 I-site; other site 1196325008966 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 1196325008967 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 1196325008968 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1196325008969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325008970 NAD(P) binding site [chemical binding]; other site 1196325008971 active site 1196325008972 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1196325008973 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1196325008974 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 1196325008975 motif II; other site 1196325008976 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1196325008977 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 1196325008978 S-adenosylmethionine binding site [chemical binding]; other site 1196325008979 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1196325008980 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 1196325008981 DNA gyrase subunit A; Validated; Region: PRK05560 1196325008982 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 1196325008983 CAP-like domain; other site 1196325008984 active site 1196325008985 primary dimer interface [polypeptide binding]; other site 1196325008986 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1196325008987 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1196325008988 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1196325008989 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1196325008990 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1196325008991 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1196325008992 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 1196325008993 homodimer interface [polypeptide binding]; other site 1196325008994 substrate-cofactor binding pocket; other site 1196325008995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325008996 catalytic residue [active] 1196325008997 Chorismate mutase type II; Region: CM_2; cl00693 1196325008998 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1196325008999 Prephenate dehydratase; Region: PDT; pfam00800 1196325009000 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 1196325009001 putative L-Phe binding site [chemical binding]; other site 1196325009002 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 1196325009003 prephenate dehydrogenase; Validated; Region: PRK08507 1196325009004 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 1196325009005 hinge; other site 1196325009006 active site 1196325009007 cytidylate kinase; Provisional; Region: cmk; PRK00023 1196325009008 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 1196325009009 CMP-binding site; other site 1196325009010 The sites determining sugar specificity; other site 1196325009011 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1196325009012 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 1196325009013 RNA binding site [nucleotide binding]; other site 1196325009014 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 1196325009015 RNA binding site [nucleotide binding]; other site 1196325009016 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 1196325009017 RNA binding site [nucleotide binding]; other site 1196325009018 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1196325009019 RNA binding site [nucleotide binding]; other site 1196325009020 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1196325009021 RNA binding site [nucleotide binding]; other site 1196325009022 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 1196325009023 RNA binding site [nucleotide binding]; other site 1196325009024 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 1196325009025 IHF dimer interface [polypeptide binding]; other site 1196325009026 IHF - DNA interface [nucleotide binding]; other site 1196325009027 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1196325009028 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1196325009029 Beta-Casp domain; Region: Beta-Casp; smart01027 1196325009030 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1196325009031 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1196325009032 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1196325009033 Substrate binding site; other site 1196325009034 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1196325009035 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 1196325009036 phosphomannomutase CpsG; Provisional; Region: PRK15414 1196325009037 active site 1196325009038 substrate binding site [chemical binding]; other site 1196325009039 metal binding site [ion binding]; metal-binding site 1196325009040 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1196325009041 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1196325009042 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1196325009043 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1196325009044 Walker A/P-loop; other site 1196325009045 ATP binding site [chemical binding]; other site 1196325009046 Q-loop/lid; other site 1196325009047 ABC transporter signature motif; other site 1196325009048 Walker B; other site 1196325009049 D-loop; other site 1196325009050 H-loop/switch region; other site 1196325009051 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1196325009052 putative carbohydrate binding site [chemical binding]; other site 1196325009053 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1196325009054 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 1196325009055 S-adenosylmethionine binding site [chemical binding]; other site 1196325009056 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 1196325009057 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196325009058 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 1196325009059 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196325009060 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1196325009061 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196325009062 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1196325009063 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1196325009064 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1196325009065 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1196325009066 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1196325009067 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1196325009068 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1196325009069 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1196325009070 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 1196325009071 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1196325009072 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1196325009073 substrate binding site; other site 1196325009074 tetramer interface; other site 1196325009075 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 1196325009076 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1196325009077 NADP binding site [chemical binding]; other site 1196325009078 active site 1196325009079 putative substrate binding site [chemical binding]; other site 1196325009080 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1196325009081 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1196325009082 NAD binding site [chemical binding]; other site 1196325009083 substrate binding site [chemical binding]; other site 1196325009084 homodimer interface [polypeptide binding]; other site 1196325009085 active site 1196325009086 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1196325009087 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1196325009088 active site 1196325009089 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196325009090 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 1196325009091 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 1196325009092 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1196325009093 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1196325009094 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1196325009095 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 1196325009096 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 1196325009097 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1196325009098 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1196325009099 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 1196325009100 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 1196325009101 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1196325009102 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1196325009103 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1196325009104 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1196325009105 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1196325009106 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 1196325009107 active site 1196325009108 homodimer interface [polypeptide binding]; other site 1196325009109 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1196325009110 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 1196325009111 TPR repeat; Region: TPR_11; pfam13414 1196325009112 binding surface 1196325009113 TPR motif; other site 1196325009114 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 1196325009115 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 1196325009116 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1196325009117 Probable Catalytic site; other site 1196325009118 metal-binding site 1196325009119 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1196325009120 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 1196325009121 active site 1196325009122 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1196325009123 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1196325009124 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1196325009125 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1196325009126 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1196325009127 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1196325009128 Walker A/P-loop; other site 1196325009129 ATP binding site [chemical binding]; other site 1196325009130 Q-loop/lid; other site 1196325009131 ABC transporter signature motif; other site 1196325009132 Walker B; other site 1196325009133 D-loop; other site 1196325009134 H-loop/switch region; other site 1196325009135 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1196325009136 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325009137 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325009138 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1196325009139 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1196325009140 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1196325009141 NADP-binding site; other site 1196325009142 homotetramer interface [polypeptide binding]; other site 1196325009143 substrate binding site [chemical binding]; other site 1196325009144 homodimer interface [polypeptide binding]; other site 1196325009145 active site 1196325009146 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1196325009147 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1196325009148 NADP-binding site; other site 1196325009149 homotetramer interface [polypeptide binding]; other site 1196325009150 substrate binding site [chemical binding]; other site 1196325009151 homodimer interface [polypeptide binding]; other site 1196325009152 active site 1196325009153 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196325009154 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1196325009155 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196325009156 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 1196325009157 putative ADP-binding pocket [chemical binding]; other site 1196325009158 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 1196325009159 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1196325009160 putative NAD(P) binding site [chemical binding]; other site 1196325009161 active site 1196325009162 putative substrate binding site [chemical binding]; other site 1196325009163 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 1196325009164 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1196325009165 Mg++ binding site [ion binding]; other site 1196325009166 putative catalytic motif [active] 1196325009167 putative substrate binding site [chemical binding]; other site 1196325009168 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1196325009169 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1196325009170 NAD(P) binding site [chemical binding]; other site 1196325009171 homodimer interface [polypeptide binding]; other site 1196325009172 substrate binding site [chemical binding]; other site 1196325009173 active site 1196325009174 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1196325009175 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 1196325009176 putative active site [active] 1196325009177 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 1196325009178 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 1196325009179 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1196325009180 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1196325009181 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 1196325009182 active site 1196325009183 dimer interface [polypeptide binding]; other site 1196325009184 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 1196325009185 dimer interface [polypeptide binding]; other site 1196325009186 active site 1196325009187 putative transposase OrfB; Reviewed; Region: PHA02517 1196325009188 HTH-like domain; Region: HTH_21; pfam13276 1196325009189 Integrase core domain; Region: rve; pfam00665 1196325009190 Integrase core domain; Region: rve_2; pfam13333 1196325009191 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1196325009192 Transposase; Region: HTH_Tnp_1; pfam01527 1196325009193 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1196325009194 glyoxylate carboligase; Provisional; Region: PRK11269 1196325009195 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1196325009196 PYR/PP interface [polypeptide binding]; other site 1196325009197 dimer interface [polypeptide binding]; other site 1196325009198 TPP binding site [chemical binding]; other site 1196325009199 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1196325009200 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 1196325009201 TPP-binding site [chemical binding]; other site 1196325009202 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1196325009203 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1196325009204 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1196325009205 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1196325009206 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1196325009207 MOFRL family; Region: MOFRL; pfam05161 1196325009208 pyruvate kinase; Provisional; Region: PRK06247 1196325009209 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 1196325009210 domain interfaces; other site 1196325009211 active site 1196325009212 Urea transporter; Region: UT; pfam03253 1196325009213 Ion transport protein; Region: Ion_trans; pfam00520 1196325009214 Ion channel; Region: Ion_trans_2; pfam07885 1196325009215 Double zinc ribbon; Region: DZR; pfam12773 1196325009216 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1196325009217 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1196325009218 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 1196325009219 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 1196325009220 S-adenosylmethionine binding site [chemical binding]; other site 1196325009221 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1196325009222 EamA-like transporter family; Region: EamA; pfam00892 1196325009223 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196325009224 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1196325009225 AsnC family; Region: AsnC_trans_reg; pfam01037 1196325009226 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 1196325009227 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1196325009228 Na binding site [ion binding]; other site 1196325009229 putative substrate binding site [chemical binding]; other site 1196325009230 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1196325009231 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1196325009232 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196325009233 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1196325009234 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1196325009235 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1196325009236 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1196325009237 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1196325009238 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1196325009239 NAD binding site [chemical binding]; other site 1196325009240 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 1196325009241 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1196325009242 acyl-activating enzyme (AAE) consensus motif; other site 1196325009243 putative AMP binding site [chemical binding]; other site 1196325009244 putative active site [active] 1196325009245 putative CoA binding site [chemical binding]; other site 1196325009246 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 1196325009247 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1196325009248 acyl-activating enzyme (AAE) consensus motif; other site 1196325009249 putative AMP binding site [chemical binding]; other site 1196325009250 putative active site [active] 1196325009251 putative CoA binding site [chemical binding]; other site 1196325009252 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1196325009253 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1196325009254 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1196325009255 (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 1196325009256 dimer interaction site [polypeptide binding]; other site 1196325009257 substrate-binding tunnel; other site 1196325009258 active site 1196325009259 catalytic site [active] 1196325009260 substrate binding site [chemical binding]; other site 1196325009261 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 1196325009262 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325009263 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1196325009264 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 1196325009265 putative hydrophobic ligand binding site [chemical binding]; other site 1196325009266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1196325009267 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1196325009268 SnoaL-like domain; Region: SnoaL_3; pfam13474 1196325009269 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1196325009270 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 1196325009271 active site 1196325009272 catalytic residues [active] 1196325009273 metal binding site [ion binding]; metal-binding site 1196325009274 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1196325009275 CsbD-like; Region: CsbD; pfam05532 1196325009276 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1196325009277 S1 domain; Region: S1_2; pfam13509 1196325009278 S1 domain; Region: S1_2; pfam13509 1196325009279 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1196325009280 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 1196325009281 EamA-like transporter family; Region: EamA; pfam00892 1196325009282 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1196325009283 EamA-like transporter family; Region: EamA; pfam00892 1196325009284 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 1196325009285 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1196325009286 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1196325009287 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 1196325009288 dimer interface [polypeptide binding]; other site 1196325009289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325009290 catalytic residue [active] 1196325009291 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1196325009292 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1196325009293 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 1196325009294 Walker A motif; other site 1196325009295 ATP binding site [chemical binding]; other site 1196325009296 Walker B motif; other site 1196325009297 arginine finger; other site 1196325009298 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1196325009299 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1196325009300 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1196325009301 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1196325009302 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1196325009303 putative active site [active] 1196325009304 benzoate transport; Region: 2A0115; TIGR00895 1196325009305 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 1196325009306 putative substrate translocation pore; other site 1196325009307 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325009308 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325009309 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 1196325009310 dimerization interface [polypeptide binding]; other site 1196325009311 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1196325009312 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 1196325009313 putative active site [active] 1196325009314 putative dimer interface [polypeptide binding]; other site 1196325009315 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1196325009316 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1196325009317 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 1196325009318 active site 1196325009319 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1196325009320 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1196325009321 hypothetical protein; Provisional; Region: PRK05170 1196325009322 Nitroreductase-like family 2. 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_2; cd02138 1196325009323 putative FMN binding site [chemical binding]; other site 1196325009324 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1196325009325 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1196325009326 NAD binding site [chemical binding]; other site 1196325009327 ligand binding site [chemical binding]; other site 1196325009328 catalytic site [active] 1196325009329 YcgL domain; Region: YcgL; pfam05166 1196325009330 ribonuclease D; Region: rnd; TIGR01388 1196325009331 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1196325009332 catalytic site [active] 1196325009333 putative active site [active] 1196325009334 putative substrate binding site [chemical binding]; other site 1196325009335 HRDC domain; Region: HRDC; pfam00570 1196325009336 putative metal dependent hydrolase; Provisional; Region: PRK11598 1196325009337 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1196325009338 Sulfatase; Region: Sulfatase; pfam00884 1196325009339 Protein of unknown function (DUF465); Region: DUF465; pfam04325 1196325009340 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1196325009341 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 1196325009342 homodimer interface [polypeptide binding]; other site 1196325009343 substrate-cofactor binding pocket; other site 1196325009344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325009345 catalytic residue [active] 1196325009346 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196325009347 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 1196325009348 putative DNA binding site [nucleotide binding]; other site 1196325009349 putative Zn2+ binding site [ion binding]; other site 1196325009350 AsnC family; Region: AsnC_trans_reg; pfam01037 1196325009351 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1196325009352 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 1196325009353 putative molybdopterin cofactor binding site [chemical binding]; other site 1196325009354 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 1196325009355 putative molybdopterin cofactor binding site; other site 1196325009356 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1196325009357 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 1196325009358 FeS/SAM binding site; other site 1196325009359 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1196325009360 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1196325009361 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 1196325009362 MPT binding site; other site 1196325009363 trimer interface [polypeptide binding]; other site 1196325009364 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325009365 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325009366 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 1196325009367 dimerization interface [polypeptide binding]; other site 1196325009368 PAS fold; Region: PAS_4; pfam08448 1196325009369 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196325009370 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325009371 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1196325009372 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 1196325009373 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1196325009374 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1196325009375 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1196325009376 inhibitor site; inhibition site 1196325009377 active site 1196325009378 dimer interface [polypeptide binding]; other site 1196325009379 catalytic residue [active] 1196325009380 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1196325009381 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1196325009382 dimer interface [polypeptide binding]; other site 1196325009383 NADP binding site [chemical binding]; other site 1196325009384 catalytic residues [active] 1196325009385 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1196325009386 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1196325009387 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1196325009388 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 1196325009389 active site 1196325009390 FMN binding site [chemical binding]; other site 1196325009391 substrate binding site [chemical binding]; other site 1196325009392 homotetramer interface [polypeptide binding]; other site 1196325009393 catalytic residue [active] 1196325009394 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 1196325009395 dimerization interface [polypeptide binding]; other site 1196325009396 putative DNA binding site [nucleotide binding]; other site 1196325009397 putative Zn2+ binding site [ion binding]; other site 1196325009398 short chain dehydrogenase; Provisional; Region: PRK05693 1196325009399 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1196325009400 NADP binding site [chemical binding]; other site 1196325009401 active site 1196325009402 steroid binding site; other site 1196325009403 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1196325009404 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1196325009405 Substrate binding site; other site 1196325009406 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1196325009407 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 1196325009408 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1196325009409 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cd00244 1196325009410 active site 1196325009411 Right handed beta helix region; Region: Beta_helix; pfam13229 1196325009412 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1196325009413 Sel1-like repeats; Region: SEL1; smart00671 1196325009414 PilZ domain; Region: PilZ; pfam07238 1196325009415 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325009416 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1196325009417 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1196325009418 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1196325009419 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1196325009420 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1196325009421 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1196325009422 hypothetical protein; Validated; Region: PRK02101 1196325009423 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1196325009424 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1196325009425 NodB motif; other site 1196325009426 active site 1196325009427 catalytic site [active] 1196325009428 metal binding site [ion binding]; metal-binding site 1196325009429 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1196325009430 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1196325009431 putative active site [active] 1196325009432 PhoH-like protein; Region: PhoH; pfam02562 1196325009433 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 1196325009434 trimer interface [polypeptide binding]; other site 1196325009435 dimer interface [polypeptide binding]; other site 1196325009436 putative active site [active] 1196325009437 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1196325009438 MoaE interaction surface [polypeptide binding]; other site 1196325009439 MoeB interaction surface [polypeptide binding]; other site 1196325009440 thiocarboxylated glycine; other site 1196325009441 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 1196325009442 MoaD interaction [polypeptide binding]; other site 1196325009443 active site residues [active] 1196325009444 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1196325009445 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1196325009446 active site 1196325009447 Peptidase M15; Region: Peptidase_M15_3; pfam08291 1196325009448 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1196325009449 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1196325009450 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 1196325009451 Predicted membrane protein [Function unknown]; Region: COG5393 1196325009452 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 1196325009453 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 1196325009454 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196325009455 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 1196325009456 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 1196325009457 active site 1196325009458 catalytic residues [active] 1196325009459 DNA binding site [nucleotide binding] 1196325009460 Int/Topo IB signature motif; other site 1196325009461 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325009462 AAA domain; Region: AAA_23; pfam13476 1196325009463 Walker A/P-loop; other site 1196325009464 ATP binding site [chemical binding]; other site 1196325009465 Protein of unknown function (DUF4427); Region: DUF4427; pfam14468 1196325009466 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 1196325009467 TIR domain; Region: TIR_2; cl17458 1196325009468 TIR domain; Region: TIR_2; cl17458 1196325009469 TIR domain; Region: TIR_2; pfam13676 1196325009470 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1196325009471 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1196325009472 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 1196325009473 dimerization interface [polypeptide binding]; other site 1196325009474 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325009475 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325009476 dimer interface [polypeptide binding]; other site 1196325009477 putative CheW interface [polypeptide binding]; other site 1196325009478 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196325009479 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1196325009480 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1196325009481 OsmC-like protein; Region: OsmC; pfam02566 1196325009482 cystathionine beta-lyase; Provisional; Region: PRK05967 1196325009483 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 1196325009484 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196325009485 catalytic residue [active] 1196325009486 amino acid transporter; Region: 2A0306; TIGR00909 1196325009487 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1196325009488 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1196325009489 Protein of unknown function (DUF466); Region: DUF466; pfam04328 1196325009490 carbon starvation protein A; Provisional; Region: PRK15015 1196325009491 Carbon starvation protein CstA; Region: CstA; pfam02554 1196325009492 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1196325009493 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 1196325009494 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 1196325009495 Histidine kinase; Region: HisKA_3; pfam07730 1196325009496 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 1196325009497 ATP binding site [chemical binding]; other site 1196325009498 Mg2+ binding site [ion binding]; other site 1196325009499 G-X-G motif; other site 1196325009500 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196325009501 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 1196325009502 active site 1196325009503 phosphorylation site [posttranslational modification] 1196325009504 intermolecular recognition site; other site 1196325009505 dimerization interface [polypeptide binding]; other site 1196325009506 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 1196325009507 DNA binding residues [nucleotide binding] 1196325009508 dimerization interface [polypeptide binding]; other site 1196325009509 OsmC-like protein; Region: OsmC; pfam02566 1196325009510 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1196325009511 classical (c) SDRs; Region: SDR_c; cd05233 1196325009512 NAD(P) binding site [chemical binding]; other site 1196325009513 active site 1196325009514 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1196325009515 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 1196325009516 catalytic residues [active] 1196325009517 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 1196325009518 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1196325009519 TrkA-N domain; Region: TrkA_N; pfam02254 1196325009520 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1196325009521 active site 1 [active] 1196325009522 dimer interface [polypeptide binding]; other site 1196325009523 hexamer interface [polypeptide binding]; other site 1196325009524 active site 2 [active] 1196325009525 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1196325009526 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 1196325009527 FMN binding site [chemical binding]; other site 1196325009528 active site 1196325009529 substrate binding site [chemical binding]; other site 1196325009530 catalytic residue [active] 1196325009531 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1196325009532 putative proline-specific permease; Provisional; Region: proY; PRK10580 1196325009533 cystathionine beta-lyase; Provisional; Region: PRK05967 1196325009534 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 1196325009535 homodimer interface [polypeptide binding]; other site 1196325009536 substrate-cofactor binding pocket; other site 1196325009537 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325009538 catalytic residue [active] 1196325009539 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 1196325009540 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 1196325009541 Helix-turn-helix domain; Region: HTH_19; pfam12844 1196325009542 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1196325009543 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1196325009544 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1196325009545 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1196325009546 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1196325009547 GAF domain; Region: GAF; pfam01590 1196325009548 GAF domain; Region: GAF_2; pfam13185 1196325009549 PAS fold; Region: PAS_4; pfam08448 1196325009550 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 1196325009551 putative active site [active] 1196325009552 heme pocket [chemical binding]; other site 1196325009553 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1196325009554 Histidine kinase; Region: HisKA_2; pfam07568 1196325009555 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 1196325009556 ATP binding site [chemical binding]; other site 1196325009557 Mg2+ binding site [ion binding]; other site 1196325009558 G-X-G motif; other site 1196325009559 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1196325009560 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 1196325009561 putative active site [active] 1196325009562 putative metal binding site [ion binding]; other site 1196325009563 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1196325009564 DNA-binding interface [nucleotide binding]; DNA binding site 1196325009565 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196325009566 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 1196325009567 active site 1196325009568 dimerization interface [polypeptide binding]; other site 1196325009569 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 1196325009570 DNA binding residues [nucleotide binding] 1196325009571 dimerization interface [polypeptide binding]; other site 1196325009572 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1196325009573 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 1196325009574 substrate binding pocket [chemical binding]; other site 1196325009575 membrane-bound complex binding site; other site 1196325009576 hinge residues; other site 1196325009577 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325009578 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 1196325009579 substrate binding pocket [chemical binding]; other site 1196325009580 membrane-bound complex binding site; other site 1196325009581 hinge residues; other site 1196325009582 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1196325009583 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 1196325009584 putative active site [active] 1196325009585 heme pocket [chemical binding]; other site 1196325009586 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 1196325009587 dimer interface [polypeptide binding]; other site 1196325009588 phosphorylation site [posttranslational modification] 1196325009589 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 1196325009590 ATP binding site [chemical binding]; other site 1196325009591 Mg2+ binding site [ion binding]; other site 1196325009592 G-X-G motif; other site 1196325009593 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325009594 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 1196325009595 active site 1196325009596 phosphorylation site [posttranslational modification] 1196325009597 intermolecular recognition site; other site 1196325009598 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 1196325009599 putative binding surface; other site 1196325009600 active site 1196325009601 hypothetical protein; Provisional; Region: PRK11702 1196325009602 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1196325009603 CHASE domain; Region: CHASE; pfam03924 1196325009604 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 1196325009605 PAS domain; Region: PAS_9; pfam13426 1196325009606 putative active site [active] 1196325009607 heme pocket [chemical binding]; other site 1196325009608 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 1196325009609 putative active site [active] 1196325009610 heme pocket [chemical binding]; other site 1196325009611 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325009612 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325009613 metal binding site [ion binding]; metal-binding site 1196325009614 active site 1196325009615 I-site; other site 1196325009616 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1196325009617 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1196325009618 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 1196325009619 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 1196325009620 S-adenosylmethionine binding site [chemical binding]; other site 1196325009621 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1196325009622 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 1196325009623 quinone interaction residues [chemical binding]; other site 1196325009624 active site 1196325009625 catalytic residues [active] 1196325009626 FMN binding site [chemical binding]; other site 1196325009627 substrate binding site [chemical binding]; other site 1196325009628 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1196325009629 NMT1-like family; Region: NMT1_2; pfam13379 1196325009630 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1196325009631 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 1196325009632 active site 1196325009633 phosphorylation site [posttranslational modification] 1196325009634 intermolecular recognition site; other site 1196325009635 dimerization interface [polypeptide binding]; other site 1196325009636 ANTAR domain; Region: ANTAR; pfam03861 1196325009637 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1196325009638 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 1196325009639 putative substrate translocation pore; other site 1196325009640 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 1196325009641 active site 1196325009642 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1196325009643 active site 1196325009644 ATP binding site [chemical binding]; other site 1196325009645 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1196325009646 substrate binding site [chemical binding]; other site 1196325009647 activation loop (A-loop); other site 1196325009648 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1196325009649 active site 1196325009650 SAM binding site [chemical binding]; other site 1196325009651 homodimer interface [polypeptide binding]; other site 1196325009652 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1196325009653 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196325009654 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196325009655 ligand binding site [chemical binding]; other site 1196325009656 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 1196325009657 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325009658 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 1196325009659 DNA binding residues [nucleotide binding] 1196325009660 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1196325009661 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 1196325009662 Cl binding site [ion binding]; other site 1196325009663 oligomer interface [polypeptide binding]; other site 1196325009664 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1196325009665 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1196325009666 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1196325009667 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1196325009668 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 1196325009669 amidase catalytic site [active] 1196325009670 Zn binding residues [ion binding]; other site 1196325009671 substrate binding site [chemical binding]; other site 1196325009672 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 1196325009673 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1196325009674 active site 1196325009675 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 1196325009676 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1196325009677 DNA binding site [nucleotide binding] 1196325009678 domain linker motif; other site 1196325009679 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1196325009680 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 1196325009681 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 1196325009682 active site 1196325009683 phosphorylation site [posttranslational modification] 1196325009684 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 1196325009685 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 1196325009686 dimerization domain swap beta strand [polypeptide binding]; other site 1196325009687 regulatory protein interface [polypeptide binding]; other site 1196325009688 active site 1196325009689 regulatory phosphorylation site [posttranslational modification]; other site 1196325009690 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1196325009691 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1196325009692 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1196325009693 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1196325009694 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1196325009695 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1196325009696 putative substrate binding site [chemical binding]; other site 1196325009697 putative ATP binding site [chemical binding]; other site 1196325009698 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1196325009699 active site 1196325009700 P-loop; other site 1196325009701 phosphorylation site [posttranslational modification] 1196325009702 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1196325009703 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1196325009704 active site 1196325009705 P-loop; other site 1196325009706 phosphorylation site [posttranslational modification] 1196325009707 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1196325009708 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1196325009709 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1196325009710 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325009711 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325009712 metal binding site [ion binding]; metal-binding site 1196325009713 active site 1196325009714 I-site; other site 1196325009715 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325009716 Flagellin N-methylase; Region: FliB; pfam03692 1196325009717 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1196325009718 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325009719 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 1196325009720 active site 1196325009721 phosphorylation site [posttranslational modification] 1196325009722 intermolecular recognition site; other site 1196325009723 dimerization interface [polypeptide binding]; other site 1196325009724 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1196325009725 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325009726 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325009727 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1196325009728 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1196325009729 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325009730 Walker A/P-loop; other site 1196325009731 ATP binding site [chemical binding]; other site 1196325009732 Q-loop/lid; other site 1196325009733 ABC transporter signature motif; other site 1196325009734 Walker B; other site 1196325009735 D-loop; other site 1196325009736 H-loop/switch region; other site 1196325009737 Outer membrane efflux protein; Region: OEP; pfam02321 1196325009738 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; cl11986 1196325009739 domain IV; other site 1196325009740 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1196325009741 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1196325009742 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1196325009743 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1196325009744 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1196325009745 hypothetical protein; Provisional; Region: PRK10621 1196325009746 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1196325009747 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1196325009748 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1196325009749 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1196325009750 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1196325009751 putative NADH binding site [chemical binding]; other site 1196325009752 putative active site [active] 1196325009753 nudix motif; other site 1196325009754 putative metal binding site [ion binding]; other site 1196325009755 enoyl-CoA hydratase; Provisional; Region: PRK06142 1196325009756 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 1196325009757 substrate binding site [chemical binding]; other site 1196325009758 oxyanion hole (OAH) forming residues; other site 1196325009759 trimer interface [polypeptide binding]; other site 1196325009760 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1196325009761 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 1196325009762 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1196325009763 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1196325009764 allantoate amidohydrolase; Reviewed; Region: PRK12893 1196325009765 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1196325009766 active site 1196325009767 metal binding site [ion binding]; metal-binding site 1196325009768 dimer interface [polypeptide binding]; other site 1196325009769 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 1196325009770 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1196325009771 Na binding site [ion binding]; other site 1196325009772 putative substrate binding site [chemical binding]; other site 1196325009773 phenylhydantoinase; Validated; Region: PRK08323 1196325009774 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 1196325009775 tetramer interface [polypeptide binding]; other site 1196325009776 active site 1196325009777 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1196325009778 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 1196325009779 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196325009780 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196325009781 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 1196325009782 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 1196325009783 homodimer interface [polypeptide binding]; other site 1196325009784 active site 1196325009785 FMN binding site [chemical binding]; other site 1196325009786 substrate binding site [chemical binding]; other site 1196325009787 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1196325009788 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325009789 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1196325009790 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196325009791 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 1196325009792 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1196325009793 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1196325009794 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 1196325009795 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1196325009796 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1196325009797 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1196325009798 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1196325009799 PAAR motif; Region: PAAR_motif; pfam05488 1196325009800 Domain of unknown function (DUF1910); Region: DUF1910; pfam08928 1196325009801 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 1196325009802 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 1196325009803 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1196325009804 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1196325009805 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1196325009806 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 1196325009807 glycogen synthase; Provisional; Region: glgA; PRK00654 1196325009808 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1196325009809 ADP-binding pocket [chemical binding]; other site 1196325009810 homodimer interface [polypeptide binding]; other site 1196325009811 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 1196325009812 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1196325009813 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1196325009814 catalytic site [active] 1196325009815 active site 1196325009816 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1196325009817 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1196325009818 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1196325009819 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 1196325009820 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1196325009821 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1196325009822 active site 1196325009823 catalytic site [active] 1196325009824 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1196325009825 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1196325009826 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 1196325009827 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1196325009828 active site 1196325009829 catalytic site [active] 1196325009830 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1196325009831 putative catalytic site [active] 1196325009832 putative metal binding site [ion binding]; other site 1196325009833 putative phosphate binding site [ion binding]; other site 1196325009834 Autotransporter beta-domain; Region: Autotransporter; smart00869 1196325009835 glycogen branching enzyme; Provisional; Region: PRK05402 1196325009836 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1196325009837 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1196325009838 active site 1196325009839 catalytic site [active] 1196325009840 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1196325009841 trehalose synthase; Region: treS_nterm; TIGR02456 1196325009842 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1196325009843 active site 1196325009844 catalytic site [active] 1196325009845 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 1196325009846 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1196325009847 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1196325009848 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 1196325009849 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1196325009850 active site 1196325009851 homodimer interface [polypeptide binding]; other site 1196325009852 catalytic site [active] 1196325009853 acceptor binding site [chemical binding]; other site 1196325009854 AMP-binding domain protein; Validated; Region: PRK08315 1196325009855 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1196325009856 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1196325009857 acyl-activating enzyme (AAE) consensus motif; other site 1196325009858 putative AMP binding site [chemical binding]; other site 1196325009859 putative active site [active] 1196325009860 putative CoA binding site [chemical binding]; other site 1196325009861 isovaleryl-CoA dehydrogenase; Region: PLN02519 1196325009862 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1196325009863 substrate binding site [chemical binding]; other site 1196325009864 FAD binding site [chemical binding]; other site 1196325009865 catalytic base [active] 1196325009866 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1196325009867 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1196325009868 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1196325009869 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 1196325009870 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 1196325009871 substrate binding site [chemical binding]; other site 1196325009872 oxyanion hole (OAH) forming residues; other site 1196325009873 trimer interface [polypeptide binding]; other site 1196325009874 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1196325009875 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1196325009876 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1196325009877 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1196325009878 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 1196325009879 carboxyltransferase (CT) interaction site; other site 1196325009880 biotinylation site [posttranslational modification]; other site 1196325009881 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1196325009882 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1196325009883 NADP binding site [chemical binding]; other site 1196325009884 dimer interface [polypeptide binding]; other site 1196325009885 catalytic residues [active] 1196325009886 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1196325009887 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 1196325009888 active site 1196325009889 putative substrate binding pocket [chemical binding]; other site 1196325009890 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1196325009891 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325009892 Coenzyme A binding pocket [chemical binding]; other site 1196325009893 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 1196325009894 heme binding pocket [chemical binding]; other site 1196325009895 heme ligand [chemical binding]; other site 1196325009896 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 1196325009897 hypothetical protein; Provisional; Region: PRK10649 1196325009898 Sulfatase; Region: Sulfatase; pfam00884 1196325009899 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1196325009900 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1196325009901 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1196325009902 mce related protein; Region: MCE; pfam02470 1196325009903 mce related protein; Region: MCE; pfam02470 1196325009904 mce related protein; Region: MCE; pfam02470 1196325009905 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 1196325009906 Paraquat-inducible protein A; Region: PqiA; pfam04403 1196325009907 Paraquat-inducible protein A; Region: PqiA; pfam04403 1196325009908 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325009909 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325009910 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 1196325009911 putative substrate binding pocket [chemical binding]; other site 1196325009912 dimerization interface [polypeptide binding]; other site 1196325009913 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196325009914 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_16; cd07263 1196325009915 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 1196325009916 putative substrate translocation pore; other site 1196325009917 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 1196325009918 dimer interface [polypeptide binding]; other site 1196325009919 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196325009920 metal binding site [ion binding]; metal-binding site 1196325009921 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1196325009922 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1196325009923 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 1196325009924 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1196325009925 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1196325009926 Family description; Region: UvrD_C_2; pfam13538 1196325009927 Pirin-related protein [General function prediction only]; Region: COG1741 1196325009928 Pirin; Region: Pirin; pfam02678 1196325009929 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1196325009930 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1196325009931 acyl-activating enzyme (AAE) consensus motif; other site 1196325009932 AMP binding site [chemical binding]; other site 1196325009933 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1196325009934 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1196325009935 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 1196325009936 Isochorismatase family; Region: Isochorismatase; pfam00857 1196325009937 catalytic triad [active] 1196325009938 conserved cis-peptide bond; other site 1196325009939 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 1196325009940 Uncharacterized bacterial family of heme peroxidases; Region: An_peroxidase_bacterial_2; cd09821 1196325009941 putative heme binding site [chemical binding]; other site 1196325009942 putative substrate binding site [chemical binding]; other site 1196325009943 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 1196325009944 Uncharacterized bacterial family of heme peroxidases; Region: An_peroxidase_bacterial_2; cd09821 1196325009945 putative heme binding site [chemical binding]; other site 1196325009946 putative substrate binding site [chemical binding]; other site 1196325009947 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1196325009948 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1196325009949 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1196325009950 Walker A/P-loop; other site 1196325009951 ATP binding site [chemical binding]; other site 1196325009952 Q-loop/lid; other site 1196325009953 ABC transporter signature motif; other site 1196325009954 Walker B; other site 1196325009955 D-loop; other site 1196325009956 H-loop/switch region; other site 1196325009957 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1196325009958 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1196325009959 lipoyl-biotinyl attachment site [posttranslational modification]; other site 1196325009960 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325009961 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1196325009962 PAS domain S-box; Region: sensory_box; TIGR00229 1196325009963 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 1196325009964 putative active site [active] 1196325009965 heme pocket [chemical binding]; other site 1196325009966 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325009967 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325009968 metal binding site [ion binding]; metal-binding site 1196325009969 active site 1196325009970 I-site; other site 1196325009971 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1196325009972 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1196325009973 Chromate transporter; Region: Chromate_transp; pfam02417 1196325009974 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1196325009975 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 1196325009976 S-adenosylmethionine binding site [chemical binding]; other site 1196325009977 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1196325009978 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 1196325009979 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1196325009980 dimer interface [polypeptide binding]; other site 1196325009981 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1196325009982 active site 1196325009983 Fe binding site [ion binding]; other site 1196325009984 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 1196325009985 metabolite-proton symporter; Region: 2A0106; TIGR00883 1196325009986 putative substrate translocation pore; other site 1196325009987 tyrosine decarboxylase; Region: PLN02880 1196325009988 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 1196325009989 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196325009990 catalytic residue [active] 1196325009991 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325009992 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325009993 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 1196325009994 substrate binding pocket [chemical binding]; other site 1196325009995 dimerization interface [polypeptide binding]; other site 1196325009996 hypothetical protein; Provisional; Region: PRK12378 1196325009997 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1196325009998 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1196325009999 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1196325010000 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 1196325010001 putative substrate translocation pore; other site 1196325010002 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1196325010003 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325010004 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 1196325010005 dimerization interface [polypeptide binding]; other site 1196325010006 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 1196325010007 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1196325010008 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 1196325010009 S-adenosylmethionine binding site [chemical binding]; other site 1196325010010 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1196325010011 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 1196325010012 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325010013 DNA-binding site [nucleotide binding]; DNA binding site 1196325010014 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 1196325010015 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325010016 homodimer interface [polypeptide binding]; other site 1196325010017 catalytic residue [active] 1196325010018 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1196325010019 WYL domain; Region: WYL; pfam13280 1196325010020 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1196325010021 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1196325010022 putative NAD(P) binding site [chemical binding]; other site 1196325010023 putative active site [active] 1196325010024 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325010025 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1196325010026 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 1196325010027 dimerization interface [polypeptide binding]; other site 1196325010028 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1196325010029 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196325010030 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 1196325010031 putative C-terminal domain interface [polypeptide binding]; other site 1196325010032 putative GSH binding site (G-site) [chemical binding]; other site 1196325010033 putative dimer interface [polypeptide binding]; other site 1196325010034 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1196325010035 putative N-terminal domain interface [polypeptide binding]; other site 1196325010036 putative dimer interface [polypeptide binding]; other site 1196325010037 putative substrate binding pocket (H-site) [chemical binding]; other site 1196325010038 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 1196325010039 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196325010040 putative substrate translocation pore; other site 1196325010041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325010042 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_10; cd08480 1196325010043 putative effector binding pocket; other site 1196325010044 putative dimerization interface [polypeptide binding]; other site 1196325010045 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196325010046 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325010047 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1196325010048 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 1196325010049 active site 1196325010050 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1196325010051 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 1196325010052 dimerization interface [polypeptide binding]; other site 1196325010053 NAD binding site [chemical binding]; other site 1196325010054 ligand binding site [chemical binding]; other site 1196325010055 catalytic site [active] 1196325010056 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 1196325010057 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 1196325010058 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 1196325010059 homodimer interface [polypeptide binding]; other site 1196325010060 substrate-cofactor binding pocket; other site 1196325010061 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325010062 catalytic residue [active] 1196325010063 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 1196325010064 Predicted ATPase [General function prediction only]; Region: COG4637 1196325010065 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325010066 Walker A/P-loop; other site 1196325010067 ATP binding site [chemical binding]; other site 1196325010068 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1196325010069 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1196325010070 Zn2+ binding site [ion binding]; other site 1196325010071 Mg2+ binding site [ion binding]; other site 1196325010072 Secretin and TonB N terminus short domain; Region: STN; smart00965 1196325010073 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1196325010074 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 1196325010075 N-terminal plug; other site 1196325010076 ligand-binding site [chemical binding]; other site 1196325010077 glutaminase; Provisional; Region: PRK00971 1196325010078 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1196325010079 benzoate transport; Region: 2A0115; TIGR00895 1196325010080 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 1196325010081 putative substrate translocation pore; other site 1196325010082 protocatechuate 4,5-dioxygenase; Provisional; Region: PRK13367 1196325010083 The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_Doxase_N; cd07950 1196325010084 putative active site [active] 1196325010085 Fe(II) binding site [ion binding]; other site 1196325010086 putative dimer interface [polypeptide binding]; other site 1196325010087 The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_dioxygenase_C; cd07923 1196325010088 putative dimer interface [polypeptide binding]; other site 1196325010089 putative N- and C-terminal domain interface [polypeptide binding]; other site 1196325010090 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325010091 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325010092 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325010093 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1196325010094 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325010095 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1196325010096 putative dimerization interface [polypeptide binding]; other site 1196325010097 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1196325010098 hypothetical protein; Provisional; Region: PRK09262 1196325010099 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 1196325010100 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 1196325010101 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1196325010102 homodecamer interface [polypeptide binding]; other site 1196325010103 GTP cyclohydrolase I; Provisional; Region: PLN03044 1196325010104 active site 1196325010105 putative catalytic site residues [active] 1196325010106 zinc binding site [ion binding]; other site 1196325010107 GTP-CH-I/GFRP interaction surface; other site 1196325010108 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1196325010109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325010110 NAD(P) binding site [chemical binding]; other site 1196325010111 active site 1196325010112 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 1196325010113 GAF domain; Region: GAF; pfam01590 1196325010114 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1196325010115 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325010116 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325010117 metal binding site [ion binding]; metal-binding site 1196325010118 active site 1196325010119 I-site; other site 1196325010120 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1196325010121 active site 1 [active] 1196325010122 dimer interface [polypeptide binding]; other site 1196325010123 hexamer interface [polypeptide binding]; other site 1196325010124 active site 2 [active] 1196325010125 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1196325010126 classical (c) SDRs; Region: SDR_c; cd05233 1196325010127 NAD(P) binding site [chemical binding]; other site 1196325010128 active site 1196325010129 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325010130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325010131 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 1196325010132 putative effector binding pocket; other site 1196325010133 dimerization interface [polypeptide binding]; other site 1196325010134 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1196325010135 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1196325010136 DNA binding residues [nucleotide binding] 1196325010137 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 1196325010138 IHF dimer interface [polypeptide binding]; other site 1196325010139 IHF - DNA interface [nucleotide binding]; other site 1196325010140 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1196325010141 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 1196325010142 putative tRNA-binding site [nucleotide binding]; other site 1196325010143 B3/4 domain; Region: B3_4; pfam03483 1196325010144 tRNA synthetase B5 domain; Region: B5; smart00874 1196325010145 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 1196325010146 dimer interface [polypeptide binding]; other site 1196325010147 motif 1; other site 1196325010148 motif 3; other site 1196325010149 motif 2; other site 1196325010150 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1196325010151 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1196325010152 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1196325010153 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 1196325010154 dimer interface [polypeptide binding]; other site 1196325010155 motif 1; other site 1196325010156 active site 1196325010157 motif 2; other site 1196325010158 motif 3; other site 1196325010159 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1196325010160 23S rRNA binding site [nucleotide binding]; other site 1196325010161 L21 binding site [polypeptide binding]; other site 1196325010162 L13 binding site [polypeptide binding]; other site 1196325010163 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1196325010164 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1196325010165 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1196325010166 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1196325010167 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1196325010168 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 1196325010169 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1196325010170 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 1196325010171 active site 1196325010172 dimer interface [polypeptide binding]; other site 1196325010173 motif 1; other site 1196325010174 motif 2; other site 1196325010175 motif 3; other site 1196325010176 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 1196325010177 anticodon binding site; other site 1196325010178 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 1196325010179 DNA-binding site [nucleotide binding]; DNA binding site 1196325010180 RNA-binding motif; other site 1196325010181 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1196325010182 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1196325010183 active site 1196325010184 tetramer interface [polypeptide binding]; other site 1196325010185 D-ribose pyranase; Provisional; Region: PRK11797 1196325010186 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1196325010187 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1196325010188 substrate binding site [chemical binding]; other site 1196325010189 dimer interface [polypeptide binding]; other site 1196325010190 ATP binding site [chemical binding]; other site 1196325010191 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1196325010192 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1196325010193 DNA binding site [nucleotide binding] 1196325010194 domain linker motif; other site 1196325010195 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1196325010196 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1196325010197 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 1196325010198 TM-ABC transporter signature motif; other site 1196325010199 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1196325010200 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1196325010201 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1196325010202 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1196325010203 Walker A/P-loop; other site 1196325010204 ATP binding site [chemical binding]; other site 1196325010205 Q-loop/lid; other site 1196325010206 ABC transporter signature motif; other site 1196325010207 Walker B; other site 1196325010208 D-loop; other site 1196325010209 H-loop/switch region; other site 1196325010210 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325010211 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 1196325010212 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1196325010213 ligand binding site [chemical binding]; other site 1196325010214 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 1196325010215 homodimer interface [polypeptide binding]; other site 1196325010216 active site 1196325010217 PAS domain; Region: PAS_9; pfam13426 1196325010218 PAS domain S-box; Region: sensory_box; TIGR00229 1196325010219 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 1196325010220 putative active site [active] 1196325010221 heme pocket [chemical binding]; other site 1196325010222 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1196325010223 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 1196325010224 Walker A motif; other site 1196325010225 ATP binding site [chemical binding]; other site 1196325010226 Walker B motif; other site 1196325010227 arginine finger; other site 1196325010228 cyanate hydratase; Validated; Region: PRK02866 1196325010229 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 1196325010230 oligomer interface [polypeptide binding]; other site 1196325010231 active site 1196325010232 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1196325010233 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 1196325010234 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 1196325010235 DNA-specific endonuclease I; Provisional; Region: PRK15137 1196325010236 HD domain; Region: HD_4; pfam13328 1196325010237 Sporulation related domain; Region: SPOR; pfam05036 1196325010238 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1196325010239 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1196325010240 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_C39A; cd02549 1196325010241 putative active site [active] 1196325010242 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1196325010243 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 1196325010244 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325010245 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 1196325010246 putative dimerization interface [polypeptide binding]; other site 1196325010247 serine/threonine transporter SstT; Provisional; Region: PRK13628 1196325010248 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1196325010249 Protein of unknown function, DUF480; Region: DUF480; pfam04337 1196325010250 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1196325010251 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1196325010252 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1196325010253 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1196325010254 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1196325010255 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1196325010256 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1196325010257 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1196325010258 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 1196325010259 putative translocon binding site; other site 1196325010260 protein-rRNA interface [nucleotide binding]; other site 1196325010261 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1196325010262 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 1196325010263 G-X-X-G motif; other site 1196325010264 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1196325010265 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 1196325010266 23S rRNA interface [nucleotide binding]; other site 1196325010267 5S rRNA interface [nucleotide binding]; other site 1196325010268 putative antibiotic binding site [chemical binding]; other site 1196325010269 L25 interface [polypeptide binding]; other site 1196325010270 L27 interface [polypeptide binding]; other site 1196325010271 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 1196325010272 23S rRNA interface [nucleotide binding]; other site 1196325010273 putative translocon interaction site; other site 1196325010274 signal recognition particle (SRP54) interaction site; other site 1196325010275 L23 interface [polypeptide binding]; other site 1196325010276 trigger factor interaction site; other site 1196325010277 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1196325010278 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1196325010279 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1196325010280 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1196325010281 RNA binding site [nucleotide binding]; other site 1196325010282 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1196325010283 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1196325010284 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1196325010285 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1196325010286 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1196325010287 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1196325010288 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1196325010289 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1196325010290 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 1196325010291 5S rRNA interface [nucleotide binding]; other site 1196325010292 23S rRNA interface [nucleotide binding]; other site 1196325010293 L5 interface [polypeptide binding]; other site 1196325010294 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1196325010295 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1196325010296 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1196325010297 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 1196325010298 23S rRNA binding site [nucleotide binding]; other site 1196325010299 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1196325010300 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1196325010301 SecY translocase; Region: SecY; pfam00344 1196325010302 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 1196325010303 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1196325010304 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1196325010305 30S ribosomal protein S11; Validated; Region: PRK05309 1196325010306 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1196325010307 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1196325010308 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 1196325010309 RNA binding surface [nucleotide binding]; other site 1196325010310 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1196325010311 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1196325010312 alphaNTD homodimer interface [polypeptide binding]; other site 1196325010313 alphaNTD - beta interaction site [polypeptide binding]; other site 1196325010314 alphaNTD - beta' interaction site [polypeptide binding]; other site 1196325010315 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1196325010316 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1196325010317 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1196325010318 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1196325010319 tetramer interface [polypeptide binding]; other site 1196325010320 heme binding pocket [chemical binding]; other site 1196325010321 NADPH binding site [chemical binding]; other site 1196325010322 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1196325010323 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1196325010324 heme binding site [chemical binding]; other site 1196325010325 ferroxidase pore; other site 1196325010326 ferroxidase diiron center [ion binding]; other site 1196325010327 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1196325010328 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1196325010329 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1196325010330 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1196325010331 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 1196325010332 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196325010333 putative substrate translocation pore; other site 1196325010334 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1196325010335 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 1196325010336 dimer interface [polypeptide binding]; other site 1196325010337 ssDNA binding site [nucleotide binding]; other site 1196325010338 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1196325010339 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 1196325010340 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325010341 DNA-binding site [nucleotide binding]; DNA binding site 1196325010342 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 1196325010343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325010344 homodimer interface [polypeptide binding]; other site 1196325010345 catalytic residue [active] 1196325010346 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1196325010347 hypothetical protein; Provisional; Region: PRK10621 1196325010348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325010349 malonic semialdehyde reductase; Provisional; Region: PRK10538 1196325010350 NAD(P) binding site [chemical binding]; other site 1196325010351 active site 1196325010352 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 1196325010353 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 1196325010354 molybdopterin cofactor binding site; other site 1196325010355 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 1196325010356 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 1196325010357 molybdopterin cofactor binding site; other site 1196325010358 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1196325010359 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 1196325010360 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1196325010361 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 1196325010362 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1196325010363 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1196325010364 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 1196325010365 selenocysteine synthase; Provisional; Region: PRK04311 1196325010366 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1196325010367 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1196325010368 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196325010369 catalytic residue [active] 1196325010370 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1196325010371 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1196325010372 G1 box; other site 1196325010373 putative GEF interaction site [polypeptide binding]; other site 1196325010374 GTP/Mg2+ binding site [chemical binding]; other site 1196325010375 Switch I region; other site 1196325010376 G2 box; other site 1196325010377 G3 box; other site 1196325010378 Switch II region; other site 1196325010379 G4 box; other site 1196325010380 G5 box; other site 1196325010381 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 1196325010382 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 1196325010383 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1196325010384 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1196325010385 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1196325010386 active site 1196325010387 homodimer interface [polypeptide binding]; other site 1196325010388 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1196325010389 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1196325010390 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 1196325010391 sequence-specific DNA binding site [nucleotide binding]; other site 1196325010392 salt bridge; other site 1196325010393 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196325010394 hypothetical protein; Provisional; Region: PRK10621 1196325010395 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1196325010396 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1196325010397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325010398 NAD(P) binding site [chemical binding]; other site 1196325010399 active site 1196325010400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325010401 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1196325010402 NAD(P) binding site [chemical binding]; other site 1196325010403 active site 1196325010404 Predicted transcriptional regulators [Transcription]; Region: COG1733 1196325010405 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1196325010406 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1196325010407 OmpW family; Region: OmpW; cl17427 1196325010408 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1196325010409 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1196325010410 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1196325010411 FtsX-like permease family; Region: FtsX; pfam02687 1196325010412 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 1196325010413 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1196325010414 Walker A/P-loop; other site 1196325010415 ATP binding site [chemical binding]; other site 1196325010416 Q-loop/lid; other site 1196325010417 ABC transporter signature motif; other site 1196325010418 Walker B; other site 1196325010419 D-loop; other site 1196325010420 H-loop/switch region; other site 1196325010421 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 1196325010422 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1196325010423 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 1196325010424 Predicted methyltransferase [General function prediction only]; Region: COG3897 1196325010425 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 1196325010426 S-adenosylmethionine binding site [chemical binding]; other site 1196325010427 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 1196325010428 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1196325010429 ATP cone domain; Region: ATP-cone; pfam03477 1196325010430 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1196325010431 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 1196325010432 catalytic motif [active] 1196325010433 Zn binding site [ion binding]; other site 1196325010434 RibD C-terminal domain; Region: RibD_C; cl17279 1196325010435 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1196325010436 Lumazine binding domain; Region: Lum_binding; pfam00677 1196325010437 Lumazine binding domain; Region: Lum_binding; pfam00677 1196325010438 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1196325010439 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1196325010440 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1196325010441 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 1196325010442 homopentamer interface [polypeptide binding]; other site 1196325010443 active site 1196325010444 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1196325010445 putative RNA binding site [nucleotide binding]; other site 1196325010446 thiamine monophosphate kinase; Provisional; Region: PRK05731 1196325010447 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 1196325010448 ATP binding site [chemical binding]; other site 1196325010449 dimerization interface [polypeptide binding]; other site 1196325010450 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1196325010451 tetramer interfaces [polypeptide binding]; other site 1196325010452 binuclear metal-binding site [ion binding]; other site 1196325010453 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325010454 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 1196325010455 membrane-bound complex binding site; other site 1196325010456 hinge residues; other site 1196325010457 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 1196325010458 dimerization interface [polypeptide binding]; other site 1196325010459 active site 1196325010460 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1196325010461 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 1196325010462 cobalamin binding residues [chemical binding]; other site 1196325010463 putative BtuC binding residues; other site 1196325010464 dimer interface [polypeptide binding]; other site 1196325010465 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1196325010466 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 1196325010467 N-terminal plug; other site 1196325010468 ligand-binding site [chemical binding]; other site 1196325010469 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1196325010470 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1196325010471 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1196325010472 GAF domain; Region: GAF; pfam01590 1196325010473 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 1196325010474 PAS domain; Region: PAS_9; pfam13426 1196325010475 putative active site [active] 1196325010476 heme pocket [chemical binding]; other site 1196325010477 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325010478 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325010479 metal binding site [ion binding]; metal-binding site 1196325010480 active site 1196325010481 I-site; other site 1196325010482 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 1196325010483 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1196325010484 putative glutathione S-transferase; Provisional; Region: PRK10357 1196325010485 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 1196325010486 putative C-terminal domain interface [polypeptide binding]; other site 1196325010487 putative GSH binding site (G-site) [chemical binding]; other site 1196325010488 putative dimer interface [polypeptide binding]; other site 1196325010489 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1196325010490 dimer interface [polypeptide binding]; other site 1196325010491 N-terminal domain interface [polypeptide binding]; other site 1196325010492 putative substrate binding pocket (H-site) [chemical binding]; other site 1196325010493 inner membrane protein; Provisional; Region: PRK11715 1196325010494 sensory histidine kinase CreC; Provisional; Region: PRK11100 1196325010495 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 1196325010496 dimerization interface [polypeptide binding]; other site 1196325010497 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 1196325010498 dimer interface [polypeptide binding]; other site 1196325010499 phosphorylation site [posttranslational modification] 1196325010500 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 1196325010501 ATP binding site [chemical binding]; other site 1196325010502 G-X-G motif; other site 1196325010503 DNA-binding response regulator CreB; Provisional; Region: PRK11083 1196325010504 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 1196325010505 active site 1196325010506 phosphorylation site [posttranslational modification] 1196325010507 intermolecular recognition site; other site 1196325010508 dimerization interface [polypeptide binding]; other site 1196325010509 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 1196325010510 DNA binding site [nucleotide binding] 1196325010511 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1196325010512 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1196325010513 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1196325010514 putative acyl-acceptor binding pocket; other site 1196325010515 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1196325010516 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 1196325010517 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1196325010518 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1196325010519 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 1196325010520 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 1196325010521 NAD binding site [chemical binding]; other site 1196325010522 catalytic Zn binding site [ion binding]; other site 1196325010523 structural Zn binding site [ion binding]; other site 1196325010524 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 1196325010525 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1196325010526 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1196325010527 putative active site [active] 1196325010528 putative substrate binding site [chemical binding]; other site 1196325010529 putative cosubstrate binding site; other site 1196325010530 catalytic site [active] 1196325010531 Sarcosine oxidase, gamma subunit family; Region: SoxG; pfam04268 1196325010532 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1196325010533 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1196325010534 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1196325010535 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 1196325010536 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1196325010537 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1196325010538 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 1196325010539 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 1196325010540 dimer interface [polypeptide binding]; other site 1196325010541 active site 1196325010542 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1196325010543 folate binding site [chemical binding]; other site 1196325010544 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1196325010545 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 1196325010546 tetramer interface [polypeptide binding]; other site 1196325010547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325010548 catalytic residue [active] 1196325010549 Cache domain; Region: Cache_1; pfam02743 1196325010550 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 1196325010551 dimerization interface [polypeptide binding]; other site 1196325010552 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325010553 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325010554 dimer interface [polypeptide binding]; other site 1196325010555 putative CheW interface [polypeptide binding]; other site 1196325010556 Cell division protein ZapA; Region: ZapA; pfam05164 1196325010557 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1196325010558 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1196325010559 HAMP domain; Region: HAMP; pfam00672 1196325010560 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325010561 dimer interface [polypeptide binding]; other site 1196325010562 putative CheW interface [polypeptide binding]; other site 1196325010563 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1196325010564 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 1196325010565 FAD binding pocket [chemical binding]; other site 1196325010566 FAD binding motif [chemical binding]; other site 1196325010567 phosphate binding motif [ion binding]; other site 1196325010568 beta-alpha-beta structure motif; other site 1196325010569 NAD binding pocket [chemical binding]; other site 1196325010570 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 1196325010571 catalytic loop [active] 1196325010572 iron binding site [ion binding]; other site 1196325010573 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1196325010574 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 1196325010575 [2Fe-2S] cluster binding site [ion binding]; other site 1196325010576 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 1196325010577 putative alpha subunit interface [polypeptide binding]; other site 1196325010578 putative active site [active] 1196325010579 putative substrate binding site [chemical binding]; other site 1196325010580 Fe binding site [ion binding]; other site 1196325010581 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1196325010582 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 1196325010583 Ligand Binding Site [chemical binding]; other site 1196325010584 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1196325010585 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1196325010586 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1196325010587 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 1196325010588 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 1196325010589 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1196325010590 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1196325010591 active site 1196325010592 metal binding site [ion binding]; metal-binding site 1196325010593 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 1196325010594 Rhomboid family; Region: Rhomboid; pfam01694 1196325010595 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 1196325010596 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 1196325010597 aminopeptidase N; Provisional; Region: pepN; PRK14015 1196325010598 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1196325010599 active site 1196325010600 Zn binding site [ion binding]; other site 1196325010601 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1196325010602 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1196325010603 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1196325010604 3-dehydroquinate synthase (EC 4.6.1.3); Region: DHQS; cl00640 1196325010605 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196325010606 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega 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_Omega_like; cd03060 1196325010607 putative GSH binding site (G-site) [chemical binding]; other site 1196325010608 active site cysteine [active] 1196325010609 putative C-terminal domain interface [polypeptide binding]; other site 1196325010610 putative dimer interface [polypeptide binding]; other site 1196325010611 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 1196325010612 putative N-terminal domain interface [polypeptide binding]; other site 1196325010613 putative dimer interface [polypeptide binding]; other site 1196325010614 putative substrate binding pocket (H-site) [chemical binding]; other site 1196325010615 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325010616 AAA domain; Region: AAA_23; pfam13476 1196325010617 Walker A/P-loop; other site 1196325010618 ATP binding site [chemical binding]; other site 1196325010619 Q-loop/lid; other site 1196325010620 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325010621 ABC transporter signature motif; other site 1196325010622 Walker B; other site 1196325010623 D-loop; other site 1196325010624 H-loop/switch region; other site 1196325010625 exonuclease subunit SbcD; Provisional; Region: PRK10966 1196325010626 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1196325010627 active site 1196325010628 metal binding site [ion binding]; metal-binding site 1196325010629 DNA binding site [nucleotide binding] 1196325010630 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1196325010631 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1196325010632 Oxygen tolerance; Region: BatD; pfam13584 1196325010633 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 1196325010634 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1196325010635 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 1196325010636 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1196325010637 TPR motif; other site 1196325010638 binding surface 1196325010639 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 1196325010640 VWA BatA type: 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_BatA_type; cd01467 1196325010641 metal ion-dependent adhesion site (MIDAS); other site 1196325010642 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1196325010643 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1196325010644 Protein of unknown function DUF58; Region: DUF58; pfam01882 1196325010645 MoxR-like ATPases [General function prediction only]; Region: COG0714 1196325010646 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 1196325010647 Walker A motif; other site 1196325010648 ATP binding site [chemical binding]; other site 1196325010649 Walker B motif; other site 1196325010650 arginine finger; other site 1196325010651 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 1196325010652 benzoate transporter; Region: benE; TIGR00843 1196325010653 Benzoate membrane transport protein; Region: BenE; pfam03594 1196325010654 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1196325010655 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1196325010656 inhibitor site; inhibition site 1196325010657 active site 1196325010658 dimer interface [polypeptide binding]; other site 1196325010659 catalytic residue [active] 1196325010660 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 1196325010661 intersubunit interface [polypeptide binding]; other site 1196325010662 active site 1196325010663 Zn2+ binding site [ion binding]; other site 1196325010664 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1196325010665 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1196325010666 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1196325010667 acyl-activating enzyme (AAE) consensus motif; other site 1196325010668 acyl-activating enzyme (AAE) consensus motif; other site 1196325010669 putative AMP binding site [chemical binding]; other site 1196325010670 putative active site [active] 1196325010671 putative CoA binding site [chemical binding]; other site 1196325010672 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196325010673 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1196325010674 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1196325010675 active site 1196325010676 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 1196325010677 D-galactonate transporter; Region: 2A0114; TIGR00893 1196325010678 putative substrate translocation pore; other site 1196325010679 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325010680 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325010681 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 1196325010682 putative dimerization interface [polypeptide binding]; other site 1196325010683 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1196325010684 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1196325010685 Domain of unknown function (DUF202); Region: DUF202; cl09954 1196325010686 Domain of unknown function (DUF202); Region: DUF202; pfam02656 1196325010687 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 1196325010688 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1196325010689 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325010690 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325010691 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 1196325010692 dimerization interface [polypeptide binding]; other site 1196325010693 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1196325010694 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1196325010695 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196325010696 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196325010697 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1196325010698 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1196325010699 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196325010700 active site 1196325010701 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1196325010702 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1196325010703 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 1196325010704 putative active site [active] 1196325010705 metal binding site [ion binding]; metal-binding site 1196325010706 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 1196325010707 active site 1196325010708 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1196325010709 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 1196325010710 dimer interface [polypeptide binding]; other site 1196325010711 active site 1196325010712 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1196325010713 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 1196325010714 motif II; other site 1196325010715 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1196325010716 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1196325010717 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 1196325010718 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325010719 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325010720 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 1196325010721 putative dimerization interface [polypeptide binding]; other site 1196325010722 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 1196325010723 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1196325010724 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1196325010725 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 1196325010726 Citrate transporter; Region: CitMHS; pfam03600 1196325010727 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325010728 CsbD-like; Region: CsbD; pfam05532 1196325010729 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1196325010730 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1196325010731 DNA binding residues [nucleotide binding] 1196325010732 dimer interface [polypeptide binding]; other site 1196325010733 [2Fe-2S] cluster binding site [ion binding]; other site 1196325010734 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1196325010735 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325010736 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325010737 multidrug efflux protein; Reviewed; Region: PRK09579 1196325010738 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1196325010739 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325010740 DNA-binding site [nucleotide binding]; DNA binding site 1196325010741 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1196325010742 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1196325010743 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1196325010744 tetramer interface [polypeptide binding]; other site 1196325010745 active site 1196325010746 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1196325010747 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1196325010748 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 1196325010749 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1196325010750 putative substrate translocation pore; other site 1196325010751 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 1196325010752 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1196325010753 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325010754 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1196325010755 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325010756 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1196325010757 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1196325010758 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325010759 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196325010760 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1196325010761 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1196325010762 Helix-turn-helix domain; Region: HTH_18; pfam12833 1196325010763 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325010764 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1196325010765 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325010766 Coenzyme A binding pocket [chemical binding]; other site 1196325010767 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325010768 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325010769 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_2; cd08464 1196325010770 putative substrate binding pocket [chemical binding]; other site 1196325010771 putative dimerization interface [polypeptide binding]; other site 1196325010772 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1196325010773 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196325010774 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325010775 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1196325010776 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1196325010777 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1196325010778 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1196325010779 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325010780 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325010781 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 1196325010782 dimerization interface [polypeptide binding]; other site 1196325010783 Predicted membrane protein [Function unknown]; Region: COG4125 1196325010784 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1196325010785 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1196325010786 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 1196325010787 catalytic residues [active] 1196325010788 dimer interface [polypeptide binding]; other site 1196325010789 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1196325010790 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1196325010791 MarR family; Region: MarR_2; pfam12802 1196325010792 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1196325010793 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1196325010794 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 1196325010795 catalytic core [active] 1196325010796 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1196325010797 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1196325010798 putative dimer interface [polypeptide binding]; other site 1196325010799 active site pocket [active] 1196325010800 putative cataytic base [active] 1196325010801 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 1196325010802 homotrimer interface [polypeptide binding]; other site 1196325010803 Walker A motif; other site 1196325010804 GTP binding site [chemical binding]; other site 1196325010805 cobyric acid synthase; Provisional; Region: PRK00784 1196325010806 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1196325010807 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1196325010808 catalytic triad [active] 1196325010809 threonine-phosphate decarboxylase; Reviewed; Region: PRK05664 1196325010810 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1196325010811 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196325010812 catalytic residue [active] 1196325010813 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1196325010814 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 1196325010815 putative FMN binding site [chemical binding]; other site 1196325010816 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1196325010817 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 1196325010818 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1196325010819 catalytic triad [active] 1196325010820 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 1196325010821 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1196325010822 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1196325010823 Walker A motif; other site 1196325010824 homodimer interface [polypeptide binding]; other site 1196325010825 ATP binding site [chemical binding]; other site 1196325010826 hydroxycobalamin binding site [chemical binding]; other site 1196325010827 Walker B motif; other site 1196325010828 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1196325010829 NlpC/P60 family; Region: NLPC_P60; pfam00877 1196325010830 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1196325010831 NlpC/P60 family; Region: NLPC_P60; pfam00877 1196325010832 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1196325010833 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 1196325010834 Walker A motif; other site 1196325010835 ATP binding site [chemical binding]; other site 1196325010836 Walker B motif; other site 1196325010837 arginine finger; other site 1196325010838 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1196325010839 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1196325010840 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1196325010841 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1196325010842 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 1196325010843 dimerization interface [polypeptide binding]; other site 1196325010844 putative ATP binding site [chemical binding]; other site 1196325010845 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1196325010846 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1196325010847 active site 1196325010848 substrate binding site [chemical binding]; other site 1196325010849 cosubstrate binding site; other site 1196325010850 catalytic site [active] 1196325010851 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1196325010852 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1196325010853 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1196325010854 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1196325010855 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 1196325010856 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 1196325010857 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1196325010858 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 1196325010859 homodimer interface [polypeptide binding]; other site 1196325010860 metal binding site [ion binding]; metal-binding site 1196325010861 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 1196325010862 homodimer interface [polypeptide binding]; other site 1196325010863 active site 1196325010864 putative chemical substrate binding site [chemical binding]; other site 1196325010865 metal binding site [ion binding]; metal-binding site 1196325010866 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1196325010867 HD domain; Region: HD_4; pfam13328 1196325010868 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1196325010869 synthetase active site [active] 1196325010870 NTP binding site [chemical binding]; other site 1196325010871 metal binding site [ion binding]; metal-binding site 1196325010872 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 1196325010873 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1196325010874 cysteine synthase B; Region: cysM; TIGR01138 1196325010875 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 1196325010876 dimer interface [polypeptide binding]; other site 1196325010877 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325010878 catalytic residue [active] 1196325010879 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325010880 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 1196325010881 dimerization interface [polypeptide binding]; other site 1196325010882 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 1196325010883 dimer interface [polypeptide binding]; other site 1196325010884 phosphorylation site [posttranslational modification] 1196325010885 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 1196325010886 ATP binding site [chemical binding]; other site 1196325010887 Mg2+ binding site [ion binding]; other site 1196325010888 G-X-G motif; other site 1196325010889 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196325010890 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 1196325010891 active site 1196325010892 phosphorylation site [posttranslational modification] 1196325010893 intermolecular recognition site; other site 1196325010894 dimerization interface [polypeptide binding]; other site 1196325010895 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 1196325010896 DNA binding site [nucleotide binding] 1196325010897 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 1196325010898 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 1196325010899 dimerization interface [polypeptide binding]; other site 1196325010900 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 1196325010901 dimer interface [polypeptide binding]; other site 1196325010902 phosphorylation site [posttranslational modification] 1196325010903 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 1196325010904 ATP binding site [chemical binding]; other site 1196325010905 Mg2+ binding site [ion binding]; other site 1196325010906 G-X-G motif; other site 1196325010907 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 1196325010908 active site 1196325010909 phosphorylation site [posttranslational modification] 1196325010910 intermolecular recognition site; other site 1196325010911 dimerization interface [polypeptide binding]; other site 1196325010912 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 1196325010913 putative binding surface; other site 1196325010914 active site 1196325010915 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1196325010916 Domain of unknown function; Region: DUF331; cl01149 1196325010917 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1196325010918 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 1196325010919 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1196325010920 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1196325010921 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1196325010922 dimer interface [polypeptide binding]; other site 1196325010923 catalytic triad [active] 1196325010924 lipoyl synthase; Provisional; Region: PRK05481 1196325010925 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 1196325010926 FeS/SAM binding site; other site 1196325010927 lipoate-protein ligase B; Provisional; Region: PRK14342 1196325010928 hypothetical protein; Provisional; Region: PRK00341 1196325010929 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1196325010930 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1196325010931 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1196325010932 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1196325010933 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1196325010934 Sporulation related domain; Region: SPOR; pfam05036 1196325010935 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1196325010936 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 1196325010937 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1196325010938 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1196325010939 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1196325010940 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1196325010941 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1196325010942 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1196325010943 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1196325010944 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1196325010945 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1196325010946 active site 1196325010947 (T/H)XGH motif; other site 1196325010948 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1196325010949 putative catalytic cysteine [active] 1196325010950 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1196325010951 active site 1196325010952 DNA binding site [nucleotide binding] 1196325010953 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1196325010954 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1196325010955 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 1196325010956 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1196325010957 active site 1196325010958 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1196325010959 LrgB-like family; Region: LrgB; pfam04172 1196325010960 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1196325010961 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 1196325010962 putative active site [active] 1196325010963 putative catalytic site [active] 1196325010964 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1196325010965 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 1196325010966 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1196325010967 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1196325010968 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1196325010969 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 1196325010970 FMN binding site [chemical binding]; other site 1196325010971 active site 1196325010972 catalytic residues [active] 1196325010973 substrate binding site [chemical binding]; other site 1196325010974 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1196325010975 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1196325010976 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1196325010977 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 1196325010978 purine monophosphate binding site [chemical binding]; other site 1196325010979 dimer interface [polypeptide binding]; other site 1196325010980 putative catalytic residues [active] 1196325010981 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1196325010982 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1196325010983 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1196325010984 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1196325010985 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1196325010986 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1196325010987 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1196325010988 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1196325010989 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 1196325010990 dimer interface [polypeptide binding]; other site 1196325010991 phosphorylation site [posttranslational modification] 1196325010992 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 1196325010993 ATP binding site [chemical binding]; other site 1196325010994 Mg2+ binding site [ion binding]; other site 1196325010995 G-X-G motif; other site 1196325010996 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325010997 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 1196325010998 active site 1196325010999 phosphorylation site [posttranslational modification] 1196325011000 intermolecular recognition site; other site 1196325011001 dimerization interface [polypeptide binding]; other site 1196325011002 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325011003 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 1196325011004 active site 1196325011005 phosphorylation site [posttranslational modification] 1196325011006 intermolecular recognition site; other site 1196325011007 dimerization interface [polypeptide binding]; other site 1196325011008 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1196325011009 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1196325011010 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1196325011011 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1196325011012 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1196325011013 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1196325011014 active site 1196325011015 SAM binding site [chemical binding]; other site 1196325011016 homodimer interface [polypeptide binding]; other site 1196325011017 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1196325011018 homodimer interface [polypeptide binding]; other site 1196325011019 active site 1196325011020 SAM binding site [chemical binding]; other site 1196325011021 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 1196325011022 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1196325011023 precorrin-3B synthase; Region: CobG; TIGR02435 1196325011024 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1196325011025 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1196325011026 active site 1196325011027 putative homodimer interface [polypeptide binding]; other site 1196325011028 SAM binding site [chemical binding]; other site 1196325011029 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1196325011030 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 1196325011031 S-adenosylmethionine binding site [chemical binding]; other site 1196325011032 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1196325011033 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1196325011034 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1196325011035 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1196325011036 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1196325011037 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 1196325011038 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1196325011039 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1196325011040 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1196325011041 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 1196325011042 N-terminal plug; other site 1196325011043 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1196325011044 ligand-binding site [chemical binding]; other site 1196325011045 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1196325011046 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1196325011047 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1196325011048 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1196325011049 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1196325011050 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1196325011051 Spore germination protein; Region: Spore_permease; cl17796 1196325011052 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1196325011053 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1196325011054 putative ligand binding site [chemical binding]; other site 1196325011055 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1196325011056 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1196325011057 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1196325011058 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1196325011059 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1196325011060 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 1196325011061 carboxyltransferase (CT) interaction site; other site 1196325011062 biotinylation site [posttranslational modification]; other site 1196325011063 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 1196325011064 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1196325011065 active site 1196325011066 trimer interface [polypeptide binding]; other site 1196325011067 dimer interface [polypeptide binding]; other site 1196325011068 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1196325011069 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1196325011070 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1196325011071 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 1196325011072 DsbD alpha interface [polypeptide binding]; other site 1196325011073 catalytic residues [active] 1196325011074 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1196325011075 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325011076 dimer interface [polypeptide binding]; other site 1196325011077 putative CheW interface [polypeptide binding]; other site 1196325011078 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325011079 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 1196325011080 active site 1196325011081 phosphorylation site [posttranslational modification] 1196325011082 intermolecular recognition site; other site 1196325011083 dimerization interface [polypeptide binding]; other site 1196325011084 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325011085 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 1196325011086 active site 1196325011087 phosphorylation site [posttranslational modification] 1196325011088 intermolecular recognition site; other site 1196325011089 dimerization interface [polypeptide binding]; other site 1196325011090 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325011091 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325011092 metal binding site [ion binding]; metal-binding site 1196325011093 active site 1196325011094 I-site; other site 1196325011095 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 1196325011096 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 1196325011097 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 1196325011098 nudix motif; other site 1196325011099 translation initiation factor Sui1; Validated; Region: PRK06824 1196325011100 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1196325011101 putative rRNA binding site [nucleotide binding]; other site 1196325011102 arginine decarboxylase; Provisional; Region: PRK05354 1196325011103 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1196325011104 dimer interface [polypeptide binding]; other site 1196325011105 active site 1196325011106 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1196325011107 catalytic residues [active] 1196325011108 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1196325011109 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1196325011110 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1196325011111 MG2 domain; Region: A2M_N; pfam01835 1196325011112 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 1196325011113 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1196325011114 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 1196325011115 surface patch; other site 1196325011116 thioester region; other site 1196325011117 specificity defining residues; other site 1196325011118 penicillin-binding protein 1C; Provisional; Region: PRK11240 1196325011119 Transglycosylase; Region: Transgly; pfam00912 1196325011120 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1196325011121 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1196325011122 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1196325011123 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1196325011124 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196325011125 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 1196325011126 active site 1196325011127 phosphorylation site [posttranslational modification] 1196325011128 intermolecular recognition site; other site 1196325011129 dimerization interface [polypeptide binding]; other site 1196325011130 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 1196325011131 DNA binding residues [nucleotide binding] 1196325011132 dimerization interface [polypeptide binding]; other site 1196325011133 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1196325011134 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1196325011135 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1196325011136 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 1196325011137 S-adenosylmethionine binding site [chemical binding]; other site 1196325011138 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 1196325011139 homodimer interface [polypeptide binding]; other site 1196325011140 chemical substrate binding site [chemical binding]; other site 1196325011141 oligomer interface [polypeptide binding]; other site 1196325011142 metal binding site [ion binding]; metal-binding site 1196325011143 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 1196325011144 active site 2 [active] 1196325011145 active site 1 [active] 1196325011146 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 1196325011147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325011148 NAD(P) binding site [chemical binding]; other site 1196325011149 active site 1196325011150 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 1196325011151 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 1196325011152 dimer interface [polypeptide binding]; other site 1196325011153 active site 1196325011154 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1196325011155 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196325011156 Cache domain; Region: Cache_1; pfam02743 1196325011157 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 1196325011158 dimerization interface [polypeptide binding]; other site 1196325011159 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325011160 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325011161 dimer interface [polypeptide binding]; other site 1196325011162 putative CheW interface [polypeptide binding]; other site 1196325011163 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1196325011164 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1196325011165 DNA binding residues [nucleotide binding] 1196325011166 dimer interface [polypeptide binding]; other site 1196325011167 copper binding site [ion binding]; other site 1196325011168 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1196325011169 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 1196325011170 metal-binding site [ion binding] 1196325011171 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1196325011172 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 1196325011173 metal-binding site [ion binding] 1196325011174 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1196325011175 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 1196325011176 metal-binding site [ion binding] 1196325011177 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 1196325011178 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1196325011179 putative substrate translocation pore; other site 1196325011180 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1196325011181 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 1196325011182 active site 1196325011183 purine riboside binding site [chemical binding]; other site 1196325011184 short chain dehydrogenase; Provisional; Region: PRK08177 1196325011185 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1196325011186 NAD(P) binding site [chemical binding]; other site 1196325011187 active site 1196325011188 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1196325011189 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1196325011190 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1196325011191 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1196325011192 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325011193 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1196325011194 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325011195 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325011196 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 1196325011197 dimerization interface [polypeptide binding]; other site 1196325011198 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1196325011199 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 1196325011200 inhibitor-cofactor binding pocket; inhibition site 1196325011201 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325011202 catalytic residue [active] 1196325011203 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1196325011204 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1196325011205 tetrameric interface [polypeptide binding]; other site 1196325011206 NAD binding site [chemical binding]; other site 1196325011207 catalytic residues [active] 1196325011208 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1196325011209 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 1196325011210 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1196325011211 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1196325011212 HemY protein N-terminus; Region: HemY_N; pfam07219 1196325011213 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1196325011214 uroporphyrinogen-III synthase; Validated; Region: PRK05752 1196325011215 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 1196325011216 active site 1196325011217 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1196325011218 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; cd00494 1196325011219 domain interfaces; other site 1196325011220 active site 1196325011221 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1196325011222 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 1196325011223 active site 1196325011224 phosphorylation site [posttranslational modification] 1196325011225 intermolecular recognition site; other site 1196325011226 dimerization interface [polypeptide binding]; other site 1196325011227 LytTr DNA-binding domain; Region: LytTR; pfam04397 1196325011228 argininosuccinate lyase; Provisional; Region: PRK00855 1196325011229 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1196325011230 active sites [active] 1196325011231 tetramer interface [polypeptide binding]; other site 1196325011232 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196325011233 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 1196325011234 C-terminal domain interface [polypeptide binding]; other site 1196325011235 GSH binding site (G-site) [chemical binding]; other site 1196325011236 dimer interface [polypeptide binding]; other site 1196325011237 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1196325011238 N-terminal domain interface [polypeptide binding]; other site 1196325011239 TIGR02647 family protein; Region: DNA 1196325011240 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1196325011241 Cytochrome c; Region: Cytochrom_C; pfam00034 1196325011242 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 1196325011243 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1196325011244 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1196325011245 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325011246 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325011247 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1196325011248 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1196325011249 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1196325011250 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1196325011251 MarR family; Region: MarR_2; cl17246 1196325011252 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1196325011253 Sel1-like repeats; Region: SEL1; smart00671 1196325011254 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1196325011255 WYL domain; Region: WYL; pfam13280 1196325011256 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 1196325011257 metal ion-dependent adhesion site (MIDAS); other site 1196325011258 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1196325011259 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 1196325011260 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1196325011261 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1196325011262 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1196325011263 hypothetical protein; Provisional; Region: PRK06847 1196325011264 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1196325011265 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 1196325011266 iron-sulfur cluster [ion binding]; other site 1196325011267 [2Fe-2S] cluster binding site [ion binding]; other site 1196325011268 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 1196325011269 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196325011270 putative active site [active] 1196325011271 putative metal binding site [ion binding]; other site 1196325011272 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325011273 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325011274 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 1196325011275 putative substrate binding pocket [chemical binding]; other site 1196325011276 putative dimerization interface [polypeptide binding]; other site 1196325011277 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1196325011278 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1196325011279 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1196325011280 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 1196325011281 active site 1196325011282 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1196325011283 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 1196325011284 Walker A motif; other site 1196325011285 ATP binding site [chemical binding]; other site 1196325011286 Walker B motif; other site 1196325011287 arginine finger; other site 1196325011288 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1196325011289 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325011290 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325011291 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 1196325011292 putative substrate binding pocket [chemical binding]; other site 1196325011293 dimerization interface [polypeptide binding]; other site 1196325011294 hypothetical protein; Provisional; Region: PRK12569 1196325011295 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 1196325011296 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1196325011297 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1196325011298 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 1196325011299 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 1196325011300 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 1196325011301 FeS/SAM binding site; other site 1196325011302 malate:quinone oxidoreductase; Validated; Region: PRK05257 1196325011303 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1196325011304 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1196325011305 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1196325011306 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1196325011307 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1196325011308 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1196325011309 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 1196325011310 S-adenosylmethionine binding site [chemical binding]; other site 1196325011311 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1196325011312 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1196325011313 NAD(P) binding pocket [chemical binding]; other site 1196325011314 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1196325011315 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1196325011316 dimer interface [polypeptide binding]; other site 1196325011317 active site 1196325011318 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1196325011319 catalytic residues [active] 1196325011320 substrate binding site [chemical binding]; other site 1196325011321 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 1196325011322 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1196325011323 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196325011324 catalytic residue [active] 1196325011325 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1196325011326 YheO-like PAS domain; Region: PAS_6; pfam08348 1196325011327 HTH domain; Region: HTH_22; pfam13309 1196325011328 amidase; Validated; Region: PRK06565 1196325011329 Amidase; Region: Amidase; cl11426 1196325011330 Amidase; Region: Amidase; cl11426 1196325011331 putative S-transferase; Provisional; Region: PRK11752 1196325011332 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 1196325011333 C-terminal domain interface [polypeptide binding]; other site 1196325011334 GSH binding site (G-site) [chemical binding]; other site 1196325011335 dimer interface [polypeptide binding]; other site 1196325011336 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1196325011337 dimer interface [polypeptide binding]; other site 1196325011338 N-terminal domain interface [polypeptide binding]; other site 1196325011339 active site 1196325011340 major facilitator superfamily transporter; Provisional; Region: PRK05122 1196325011341 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 1196325011342 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1196325011343 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196325011344 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325011345 Walker A/P-loop; other site 1196325011346 ATP binding site [chemical binding]; other site 1196325011347 ABC transporter signature motif; other site 1196325011348 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196325011349 Walker B; other site 1196325011350 ABC transporter; Region: ABC_tran_2; pfam12848 1196325011351 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196325011352 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 1196325011353 DNA binding site [nucleotide binding] 1196325011354 active site 1196325011355 Int/Topo IB signature motif; other site 1196325011356 OsmC-like protein; Region: OsmC; cl00767 1196325011357 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 1196325011358 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1196325011359 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 1196325011360 active site 1196325011361 phosphorylation site [posttranslational modification] 1196325011362 intermolecular recognition site; other site 1196325011363 dimerization interface [polypeptide binding]; other site 1196325011364 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1196325011365 Zn2+ binding site [ion binding]; other site 1196325011366 Mg2+ binding site [ion binding]; other site 1196325011367 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1196325011368 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325011369 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 1196325011370 ATP binding site [chemical binding]; other site 1196325011371 Mg2+ binding site [ion binding]; other site 1196325011372 G-X-G motif; other site 1196325011373 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325011374 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 1196325011375 active site 1196325011376 phosphorylation site [posttranslational modification] 1196325011377 intermolecular recognition site; other site 1196325011378 dimerization interface [polypeptide binding]; other site 1196325011379 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 1196325011380 dimer interface [polypeptide binding]; other site 1196325011381 phosphorylation site [posttranslational modification] 1196325011382 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 1196325011383 ATP binding site [chemical binding]; other site 1196325011384 Mg2+ binding site [ion binding]; other site 1196325011385 G-X-G motif; other site 1196325011386 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1196325011387 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 1196325011388 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1196325011389 ApbE family; Region: ApbE; pfam02424 1196325011390 Flavodoxin; Region: Flavodoxin_1; pfam00258 1196325011391 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_like2; cd06201 1196325011392 FAD binding pocket [chemical binding]; other site 1196325011393 FAD binding motif [chemical binding]; other site 1196325011394 catalytic residues [active] 1196325011395 NAD binding pocket [chemical binding]; other site 1196325011396 phosphate binding motif [ion binding]; other site 1196325011397 beta-alpha-beta structure motif; other site 1196325011398 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1196325011399 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1196325011400 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196325011401 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 1196325011402 active site 1196325011403 phosphorylation site [posttranslational modification] 1196325011404 intermolecular recognition site; other site 1196325011405 dimerization interface [polypeptide binding]; other site 1196325011406 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 1196325011407 DNA binding site [nucleotide binding] 1196325011408 sensor protein QseC; Provisional; Region: PRK10337 1196325011409 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 1196325011410 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 1196325011411 dimer interface [polypeptide binding]; other site 1196325011412 phosphorylation site [posttranslational modification] 1196325011413 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 1196325011414 ATP binding site [chemical binding]; other site 1196325011415 Mg2+ binding site [ion binding]; other site 1196325011416 G-X-G motif; other site 1196325011417 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 1196325011418 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325011419 DNA-binding site [nucleotide binding]; DNA binding site 1196325011420 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 1196325011421 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325011422 homodimer interface [polypeptide binding]; other site 1196325011423 catalytic residue [active] 1196325011424 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1196325011425 EamA-like transporter family; Region: EamA; pfam00892 1196325011426 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1196325011427 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 1196325011428 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325011429 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325011430 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 1196325011431 putative effector binding pocket; other site 1196325011432 dimerization interface [polypeptide binding]; other site 1196325011433 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1196325011434 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1196325011435 putative NAD(P) binding site [chemical binding]; other site 1196325011436 dimer interface [polypeptide binding]; other site 1196325011437 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1196325011438 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 1196325011439 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1196325011440 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1196325011441 Cl binding site [ion binding]; other site 1196325011442 oligomer interface [polypeptide binding]; other site 1196325011443 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 1196325011444 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 1196325011445 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1196325011446 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1196325011447 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1196325011448 Peptidase_C39 like family; Region: DUF3335; pfam11814 1196325011449 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 1196325011450 GSH binding site [chemical binding]; other site 1196325011451 catalytic residues [active] 1196325011452 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1196325011453 Cupin; Region: Cupin_6; pfam12852 1196325011454 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196325011455 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325011456 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325011457 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325011458 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325011459 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 1196325011460 putative effector binding pocket; other site 1196325011461 dimerization interface [polypeptide binding]; other site 1196325011462 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 1196325011463 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1196325011464 putative NAD(P) binding site [chemical binding]; other site 1196325011465 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 1196325011466 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 1196325011467 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 1196325011468 putative NADP binding site [chemical binding]; other site 1196325011469 putative substrate binding site [chemical binding]; other site 1196325011470 active site 1196325011471 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325011472 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 1196325011473 Predicted transcriptional regulators [Transcription]; Region: COG1733 1196325011474 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1196325011475 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1196325011476 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1196325011477 putative NAD(P) binding site [chemical binding]; other site 1196325011478 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1196325011479 classical (c) SDRs; Region: SDR_c; cd05233 1196325011480 NAD(P) binding site [chemical binding]; other site 1196325011481 active site 1196325011482 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg7; cd04786 1196325011483 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1196325011484 DNA binding residues [nucleotide binding] 1196325011485 putative dimer interface [polypeptide binding]; other site 1196325011486 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1196325011487 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1196325011488 potential catalytic triad [active] 1196325011489 conserved cys residue [active] 1196325011490 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1196325011491 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 1196325011492 putative active site [active] 1196325011493 putative FMN binding site [chemical binding]; other site 1196325011494 putative substrate binding site [chemical binding]; other site 1196325011495 putative catalytic residue [active] 1196325011496 classical (c) SDRs; Region: SDR_c; cd05233 1196325011497 NAD(P) binding site [chemical binding]; other site 1196325011498 active site 1196325011499 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325011500 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325011501 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 1196325011502 putative effector binding pocket; other site 1196325011503 putative dimerization interface [polypeptide binding]; other site 1196325011504 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1196325011505 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 1196325011506 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196325011507 catalytic site [active] 1196325011508 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1196325011509 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1196325011510 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 1196325011511 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1196325011512 active site 1196325011513 catalytic tetrad [active] 1196325011514 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1196325011515 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 1196325011516 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1196325011517 active site 1196325011518 catalytic tetrad [active] 1196325011519 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325011520 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325011521 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 1196325011522 substrate binding pocket [chemical binding]; other site 1196325011523 dimerization interface [polypeptide binding]; other site 1196325011524 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 1196325011525 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1196325011526 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1196325011527 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196325011528 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 1196325011529 active site 1196325011530 metal binding site [ion binding]; metal-binding site 1196325011531 (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 1196325011532 active site 1196325011533 catalytic site [active] 1196325011534 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1196325011535 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1196325011536 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1196325011537 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1196325011538 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1196325011539 shikimate binding site; other site 1196325011540 NAD(P) binding site [chemical binding]; other site 1196325011541 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 1196325011542 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1196325011543 trimer interface [polypeptide binding]; other site 1196325011544 active site 1196325011545 dimer interface [polypeptide binding]; other site 1196325011546 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 1196325011547 putative substrate translocation pore; other site 1196325011548 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 1196325011549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 1196325011550 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1196325011551 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 1196325011552 DNA binding residues [nucleotide binding] 1196325011553 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1196325011554 PYR/PP interface [polypeptide binding]; other site 1196325011555 dimer interface [polypeptide binding]; other site 1196325011556 TPP binding site [chemical binding]; other site 1196325011557 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1196325011558 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 1196325011559 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1196325011560 putative fimbrial protein TcfA; Provisional; Region: PRK15308 1196325011561 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 1196325011562 short chain dehydrogenase; Provisional; Region: PRK05650 1196325011563 classical (c) SDRs; Region: SDR_c; cd05233 1196325011564 NAD(P) binding site [chemical binding]; other site 1196325011565 active site 1196325011566 Global regulator protein family; Region: CsrA; pfam02599 1196325011567 hypothetical protein; Provisional; Region: PRK00304 1196325011568 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1196325011569 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 1196325011570 putative oligomer interface [polypeptide binding]; other site 1196325011571 putative active site [active] 1196325011572 metal binding site [ion binding]; metal-binding site 1196325011573 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325011574 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1196325011575 Coenzyme A binding pocket [chemical binding]; other site 1196325011576 D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]; Region: DdlA; COG1181 1196325011577 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1196325011578 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 1196325011579 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1196325011580 Y-family of DNA polymerases; Region: PolY; cl12025 1196325011581 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325011582 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325011583 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 1196325011584 dimerization interface [polypeptide binding]; other site 1196325011585 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 1196325011586 Alginate lyase; Region: Alginate_lyase2; pfam08787 1196325011587 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 1196325011588 Predicted transcriptional regulator [Transcription]; Region: COG2932 1196325011589 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 1196325011590 Catalytic site [active] 1196325011591 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 1196325011592 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1196325011593 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1196325011594 shikimate binding site; other site 1196325011595 NAD(P) binding site [chemical binding]; other site 1196325011596 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1196325011597 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196325011598 dimer interface [polypeptide binding]; other site 1196325011599 active site 1196325011600 metal binding site [ion binding]; metal-binding site 1196325011601 glutathione binding site [chemical binding]; other site 1196325011602 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325011603 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 1196325011604 active site 1196325011605 SAM binding site [chemical binding]; other site 1196325011606 homodimer interface [polypeptide binding]; other site 1196325011607 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325011608 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 1196325011609 active site 1196325011610 phosphorylation site [posttranslational modification] 1196325011611 intermolecular recognition site; other site 1196325011612 dimerization interface [polypeptide binding]; other site 1196325011613 CHASE3 domain; Region: CHASE3; pfam05227 1196325011614 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1196325011615 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1196325011616 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 1196325011617 dimer interface [polypeptide binding]; other site 1196325011618 phosphorylation site [posttranslational modification] 1196325011619 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 1196325011620 ATP binding site [chemical binding]; other site 1196325011621 Mg2+ binding site [ion binding]; other site 1196325011622 G-X-G motif; other site 1196325011623 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1196325011624 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1196325011625 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1196325011626 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1196325011627 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1196325011628 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 1196325011629 S-adenosylmethionine binding site [chemical binding]; other site 1196325011630 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1196325011631 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; cd01983 1196325011632 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 1196325011633 Magnesium ion binding site [ion binding]; other site 1196325011634 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1196325011635 ParB-like nuclease domain; Region: ParBc; pfam02195 1196325011636 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 1196325011637 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1196325011638 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1196325011639 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1196325011640 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1196325011641 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1196325011642 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1196325011643 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1196325011644 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1196325011645 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1196325011646 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 1196325011647 beta subunit interaction interface [polypeptide binding]; other site 1196325011648 Walker A motif; other site 1196325011649 ATP binding site [chemical binding]; other site 1196325011650 Walker B motif; other site 1196325011651 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1196325011652 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1196325011653 core domain interface [polypeptide binding]; other site 1196325011654 delta subunit interface [polypeptide binding]; other site 1196325011655 epsilon subunit interface [polypeptide binding]; other site 1196325011656 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1196325011657 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1196325011658 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 1196325011659 alpha subunit interaction interface [polypeptide binding]; other site 1196325011660 Walker A motif; other site 1196325011661 ATP binding site [chemical binding]; other site 1196325011662 Walker B motif; other site 1196325011663 inhibitor binding site; inhibition site 1196325011664 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1196325011665 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1196325011666 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1196325011667 gamma subunit interface [polypeptide binding]; other site 1196325011668 epsilon subunit interface [polypeptide binding]; other site 1196325011669 LBP interface [polypeptide binding]; other site 1196325011670 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 1196325011671 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1196325011672 Substrate binding site; other site 1196325011673 Mg++ binding site; other site 1196325011674 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 1196325011675 active site 1196325011676 substrate binding site [chemical binding]; other site 1196325011677 CoA binding site [chemical binding]; other site 1196325011678 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1196325011679 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1196325011680 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1196325011681 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1196325011682 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 1196325011683 glutaminase active site [active] 1196325011684 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 1196325011685 dimer interface [polypeptide binding]; other site 1196325011686 active site 1196325011687 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 1196325011688 dimer interface [polypeptide binding]; other site 1196325011689 active site 1196325011690 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1196325011691 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325011692 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 1196325011693 dimerization interface [polypeptide binding]; other site 1196325011694 substrate binding pocket [chemical binding]; other site 1196325011695 BCCT family transporter; Region: BCCT; pfam02028 1196325011696 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1196325011697 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 1196325011698 [2Fe-2S] cluster binding site [ion binding]; other site 1196325011699 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1196325011700 alpha subunit interface [polypeptide binding]; other site 1196325011701 active site 1196325011702 substrate binding site [chemical binding]; other site 1196325011703 Fe binding site [ion binding]; other site 1196325011704 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1196325011705 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 1196325011706 NAD(P) binding site [chemical binding]; other site 1196325011707 catalytic residues [active] 1196325011708 catalytic residues [active] 1196325011709 Rubredoxin [Energy production and conversion]; Region: COG1773 1196325011710 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 1196325011711 iron binding site [ion binding]; other site 1196325011712 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 1196325011713 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196325011714 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1196325011715 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1196325011716 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 1196325011717 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 1196325011718 putative substrate translocation pore; other site 1196325011719 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1196325011720 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1196325011721 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 1196325011722 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1196325011723 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196325011724 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1196325011725 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 1196325011726 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 1196325011727 S-adenosylmethionine binding site [chemical binding]; other site 1196325011728 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1196325011729 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 1196325011730 putative active site [active] 1196325011731 catalytic site [active] 1196325011732 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1196325011733 putative active site [active] 1196325011734 catalytic site [active] 1196325011735 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 1196325011736 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1196325011737 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1196325011738 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1196325011739 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 1196325011740 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1196325011741 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1196325011742 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1196325011743 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 1196325011744 pyridoxamine kinase; Validated; Region: PRK05756 1196325011745 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 1196325011746 pyridoxal binding site [chemical binding]; other site 1196325011747 dimer interface [polypeptide binding]; other site 1196325011748 ATP binding site [chemical binding]; other site 1196325011749 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 1196325011750 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1196325011751 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1196325011752 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 1196325011753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1196325011754 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1196325011755 Part of AAA domain; Region: AAA_19; pfam13245 1196325011756 Family description; Region: UvrD_C_2; pfam13538 1196325011757 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1196325011758 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1196325011759 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1196325011760 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1196325011761 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1196325011762 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 1196325011763 putative active site [active] 1196325011764 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325011765 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325011766 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 1196325011767 putative dimerization interface [polypeptide binding]; other site 1196325011768 pyruvate carboxylase subunit A; Validated; Region: PRK07178 1196325011769 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1196325011770 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1196325011771 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1196325011772 pyruvate carboxylase subunit B; Validated; Region: PRK09282 1196325011773 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1196325011774 active site 1196325011775 catalytic residues [active] 1196325011776 metal binding site [ion binding]; metal-binding site 1196325011777 homodimer binding site [polypeptide binding]; other site 1196325011778 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 1196325011779 carboxyltransferase (CT) interaction site; other site 1196325011780 biotinylation site [posttranslational modification]; other site 1196325011781 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1196325011782 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1196325011783 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1196325011784 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325011785 Coenzyme A binding pocket [chemical binding]; other site 1196325011786 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 1196325011787 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 1196325011788 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325011789 DNA-binding site [nucleotide binding]; DNA binding site 1196325011790 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 1196325011791 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325011792 homodimer interface [polypeptide binding]; other site 1196325011793 catalytic residue [active] 1196325011794 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1196325011795 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1196325011796 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1196325011797 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1196325011798 active site 1196325011799 Zn binding site [ion binding]; other site 1196325011800 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1196325011801 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196325011802 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1196325011803 Aspartase; Region: Aspartase; cd01357 1196325011804 active sites [active] 1196325011805 tetramer interface [polypeptide binding]; other site 1196325011806 cell density-dependent motility repressor; Provisional; Region: PRK10082 1196325011807 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325011808 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 1196325011809 dimerization interface [polypeptide binding]; other site 1196325011810 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1196325011811 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1196325011812 ATP-grasp domain; Region: ATP-grasp; pfam02222 1196325011813 Predicted membrane protein [Function unknown]; Region: COG2261 1196325011814 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1196325011815 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1196325011816 active site 1196325011817 phosphate binding residues; other site 1196325011818 catalytic residues [active] 1196325011819 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 1196325011820 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 1196325011821 metabolite-proton symporter; Region: 2A0106; TIGR00883 1196325011822 putative substrate translocation pore; other site 1196325011823 phosphate binding protein; Region: ptsS_2; TIGR02136 1196325011824 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 1196325011825 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 1196325011826 dimer interface [polypeptide binding]; other site 1196325011827 conserved gate region; other site 1196325011828 putative PBP binding loops; other site 1196325011829 ABC-ATPase subunit interface; other site 1196325011830 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 1196325011831 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1196325011832 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 1196325011833 dimer interface [polypeptide binding]; other site 1196325011834 conserved gate region; other site 1196325011835 putative PBP binding loops; other site 1196325011836 ABC-ATPase subunit interface; other site 1196325011837 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 1196325011838 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1196325011839 Walker A/P-loop; other site 1196325011840 ATP binding site [chemical binding]; other site 1196325011841 Q-loop/lid; other site 1196325011842 ABC transporter signature motif; other site 1196325011843 Walker B; other site 1196325011844 D-loop; other site 1196325011845 H-loop/switch region; other site 1196325011846 transcriptional regulator PhoU; Provisional; Region: PRK11115 1196325011847 PhoU domain; Region: PhoU; pfam01895 1196325011848 PhoU domain; Region: PhoU; pfam01895 1196325011849 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325011850 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 1196325011851 active site 1196325011852 phosphorylation site [posttranslational modification] 1196325011853 intermolecular recognition site; other site 1196325011854 dimerization interface [polypeptide binding]; other site 1196325011855 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1196325011856 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1196325011857 Peptidase family M23; Region: Peptidase_M23; pfam01551 1196325011858 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1196325011859 Domain of unknown function DUF21; Region: DUF21; pfam01595 1196325011860 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 1196325011861 Transporter associated domain; Region: CorC_HlyC; smart01091 1196325011862 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1196325011863 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1196325011864 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 1196325011865 putative active site [active] 1196325011866 heme pocket [chemical binding]; other site 1196325011867 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 1196325011868 dimer interface [polypeptide binding]; other site 1196325011869 phosphorylation site [posttranslational modification] 1196325011870 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 1196325011871 ATP binding site [chemical binding]; other site 1196325011872 Mg2+ binding site [ion binding]; other site 1196325011873 G-X-G motif; other site 1196325011874 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1196325011875 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 1196325011876 active site 1196325011877 phosphorylation site [posttranslational modification] 1196325011878 intermolecular recognition site; other site 1196325011879 dimerization interface [polypeptide binding]; other site 1196325011880 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 1196325011881 DNA binding site [nucleotide binding] 1196325011882 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1196325011883 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1196325011884 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1196325011885 UbiA prenyltransferase family; Region: UbiA; pfam01040 1196325011886 Chorismate lyase; Region: Chor_lyase; cl01230 1196325011887 Rubredoxin [Energy production and conversion]; Region: COG1773 1196325011888 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 1196325011889 iron binding site [ion binding]; other site 1196325011890 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 1196325011891 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196325011892 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 1196325011893 IHF dimer interface [polypeptide binding]; other site 1196325011894 IHF - DNA interface [nucleotide binding]; other site 1196325011895 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1196325011896 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 1196325011897 putative deacylase active site [active] 1196325011898 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1196325011899 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1196325011900 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 1196325011901 generic binding surface II; other site 1196325011902 ssDNA binding site; other site 1196325011903 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 1196325011904 ATP binding site [chemical binding]; other site 1196325011905 putative Mg++ binding site [ion binding]; other site 1196325011906 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 1196325011907 nucleotide binding region [chemical binding]; other site 1196325011908 ATP-binding site [chemical binding]; other site 1196325011909 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1196325011910 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325011911 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 1196325011912 dimerization interface [polypeptide binding]; other site 1196325011913 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1196325011914 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1196325011915 biopolymer transport protein ExbD; Provisional; Region: PRK11267 1196325011916 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1196325011917 tonB-system energizer ExbB; Region: exbB; TIGR02797 1196325011918 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1196325011919 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1196325011920 putative NAD(P) binding site [chemical binding]; other site 1196325011921 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 1196325011922 homotrimer interaction site [polypeptide binding]; other site 1196325011923 putative active site [active] 1196325011924 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1196325011925 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1196325011926 Zn2+ binding site [ion binding]; other site 1196325011927 Mg2+ binding site [ion binding]; other site 1196325011928 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1196325011929 synthetase active site [active] 1196325011930 NTP binding site [chemical binding]; other site 1196325011931 metal binding site [ion binding]; metal-binding site 1196325011932 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 1196325011933 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1196325011934 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1196325011935 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325011936 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325011937 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 1196325011938 dimerization interface [polypeptide binding]; other site 1196325011939 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1196325011940 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1196325011941 Peptidase C26; Region: Peptidase_C26; pfam07722 1196325011942 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1196325011943 catalytic triad [active] 1196325011944 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1196325011945 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1196325011946 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 1196325011947 catalytic site [active] 1196325011948 G-X2-G-X-G-K; other site 1196325011949 hypothetical protein; Provisional; Region: PRK11820 1196325011950 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1196325011951 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1196325011952 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1196325011953 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325011954 Coenzyme A binding pocket [chemical binding]; other site 1196325011955 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1196325011956 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 1196325011957 RNA binding surface [nucleotide binding]; other site 1196325011958 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 1196325011959 active site 1196325011960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1196325011961 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1196325011962 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1196325011963 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1196325011964 homodimer interaction site [polypeptide binding]; other site 1196325011965 cofactor binding site; other site 1196325011966 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1196325011967 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1196325011968 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 1196325011969 dimer interface [polypeptide binding]; other site 1196325011970 phosphorylation site [posttranslational modification] 1196325011971 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 1196325011972 ATP binding site [chemical binding]; other site 1196325011973 Mg2+ binding site [ion binding]; other site 1196325011974 G-X-G motif; other site 1196325011975 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 1196325011976 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 1196325011977 active site 1196325011978 phosphorylation site [posttranslational modification] 1196325011979 intermolecular recognition site; other site 1196325011980 dimerization interface [polypeptide binding]; other site 1196325011981 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 1196325011982 DNA binding site [nucleotide binding] 1196325011983 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1196325011984 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1196325011985 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1196325011986 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1196325011987 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1196325011988 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 1196325011989 dimerization interface [polypeptide binding]; other site 1196325011990 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 1196325011991 dimer interface [polypeptide binding]; other site 1196325011992 phosphorylation site [posttranslational modification] 1196325011993 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 1196325011994 ATP binding site [chemical binding]; other site 1196325011995 Mg2+ binding site [ion binding]; other site 1196325011996 G-X-G motif; other site 1196325011997 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196325011998 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 1196325011999 active site 1196325012000 phosphorylation site [posttranslational modification] 1196325012001 intermolecular recognition site; other site 1196325012002 dimerization interface [polypeptide binding]; other site 1196325012003 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 1196325012004 DNA binding site [nucleotide binding] 1196325012005 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1196325012006 ATP cone domain; Region: ATP-cone; pfam03477 1196325012007 ATP cone domain; Region: ATP-cone; pfam03477 1196325012008 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1196325012009 active site 1196325012010 dimer interface [polypeptide binding]; other site 1196325012011 catalytic residues [active] 1196325012012 effector binding site; other site 1196325012013 R2 peptide binding site; other site 1196325012014 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1196325012015 dimer interface [polypeptide binding]; other site 1196325012016 putative radical transfer pathway; other site 1196325012017 diiron center [ion binding]; other site 1196325012018 tyrosyl radical; other site 1196325012019 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1196325012020 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 1196325012021 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325012022 Predicted integral membrane protein [Function unknown]; Region: COG0392 1196325012023 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1196325012024 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1196325012025 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 1196325012026 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1196325012027 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1196325012028 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1196325012029 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1196325012030 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 1196325012031 FeS/SAM binding site; other site 1196325012032 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1196325012033 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1196325012034 conserved cys residue [active] 1196325012035 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325012036 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325012037 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1196325012038 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1196325012039 Walker A/P-loop; other site 1196325012040 ATP binding site [chemical binding]; other site 1196325012041 Q-loop/lid; other site 1196325012042 ABC transporter signature motif; other site 1196325012043 Walker B; other site 1196325012044 D-loop; other site 1196325012045 H-loop/switch region; other site 1196325012046 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 1196325012047 dimer interface [polypeptide binding]; other site 1196325012048 conserved gate region; other site 1196325012049 putative PBP binding loops; other site 1196325012050 ABC-ATPase subunit interface; other site 1196325012051 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1196325012052 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 1196325012053 dimer interface [polypeptide binding]; other site 1196325012054 conserved gate region; other site 1196325012055 putative PBP binding loops; other site 1196325012056 ABC-ATPase subunit interface; other site 1196325012057 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1196325012058 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 1196325012059 substrate binding pocket [chemical binding]; other site 1196325012060 membrane-bound complex binding site; other site 1196325012061 hinge residues; other site 1196325012062 acetyl-CoA synthetase; Provisional; Region: PRK00174 1196325012063 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1196325012064 active site 1196325012065 CoA binding site [chemical binding]; other site 1196325012066 acyl-activating enzyme (AAE) consensus motif; other site 1196325012067 AMP binding site [chemical binding]; other site 1196325012068 acetate binding site [chemical binding]; other site 1196325012069 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1196325012070 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1196325012071 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1196325012072 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 1196325012073 putative active site [active] 1196325012074 heme pocket [chemical binding]; other site 1196325012075 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 1196325012076 Walker A motif; other site 1196325012077 ATP binding site [chemical binding]; other site 1196325012078 Walker B motif; other site 1196325012079 arginine finger; other site 1196325012080 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 1196325012081 cofactor binding site; other site 1196325012082 metal binding site [ion binding]; metal-binding site 1196325012083 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 1196325012084 aromatic arch; other site 1196325012085 DCoH dimer interaction site [polypeptide binding]; other site 1196325012086 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1196325012087 DCoH tetramer interaction site [polypeptide binding]; other site 1196325012088 substrate binding site [chemical binding]; other site 1196325012089 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 1196325012090 major facilitator superfamily transporter; Provisional; Region: PRK05122 1196325012091 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 1196325012092 putative substrate translocation pore; other site 1196325012093 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1196325012094 FAD binding domain; Region: FAD_binding_4; pfam01565 1196325012095 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1196325012096 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1196325012097 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325012098 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 1196325012099 dimerization interface [polypeptide binding]; other site 1196325012100 aromatic amino acid transporter; Provisional; Region: PRK10238 1196325012101 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1196325012102 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 1196325012103 RNA binding surface [nucleotide binding]; other site 1196325012104 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1196325012105 probable active site [active] 1196325012106 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1196325012107 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1196325012108 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1196325012109 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1196325012110 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1196325012111 active site 1196325012112 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1196325012113 intracellular septation protein A; Reviewed; Region: PRK00259 1196325012114 YciI-like protein; Reviewed; Region: PRK11370 1196325012115 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196325012116 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 1196325012117 active site 1196325012118 phosphorylation site [posttranslational modification] 1196325012119 intermolecular recognition site; other site 1196325012120 dimerization interface [polypeptide binding]; other site 1196325012121 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 1196325012122 DNA binding site [nucleotide binding] 1196325012123 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1196325012124 two-component sensor protein; Provisional; Region: cpxA; PRK09470 1196325012125 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 1196325012126 dimerization interface [polypeptide binding]; other site 1196325012127 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 1196325012128 ATP binding site [chemical binding]; other site 1196325012129 Mg2+ binding site [ion binding]; other site 1196325012130 G-X-G motif; other site 1196325012131 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 1196325012132 putative FMN binding site [chemical binding]; other site 1196325012133 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1196325012134 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1196325012135 Protein of unknown function (DUF962); Region: DUF962; pfam06127 1196325012136 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1196325012137 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1196325012138 putative active site [active] 1196325012139 putative metal binding site [ion binding]; other site 1196325012140 Cupin domain; Region: Cupin_2; cl17218 1196325012141 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325012142 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196325012143 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325012144 EamA-like transporter family; Region: EamA; pfam00892 1196325012145 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 1196325012146 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1196325012147 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1196325012148 active site 1196325012149 nucleophile elbow; other site 1196325012150 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1196325012151 Surface antigen; Region: Bac_surface_Ag; pfam01103 1196325012152 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1196325012153 MarR family; Region: MarR_2; pfam12802 1196325012154 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1196325012155 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 1196325012156 ATP binding site [chemical binding]; other site 1196325012157 putative Mg++ binding site [ion binding]; other site 1196325012158 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 1196325012159 nucleotide binding region [chemical binding]; other site 1196325012160 ATP-binding site [chemical binding]; other site 1196325012161 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1196325012162 HRDC domain; Region: HRDC; pfam00570 1196325012163 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 1196325012164 yecA family protein; Region: ygfB_yecA; TIGR02292 1196325012165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1196325012166 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1196325012167 DTW domain; Region: DTW; cl01221 1196325012168 PAS domain; Region: PAS_9; pfam13426 1196325012169 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 1196325012170 putative active site [active] 1196325012171 heme pocket [chemical binding]; other site 1196325012172 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325012173 dimer interface [polypeptide binding]; other site 1196325012174 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1196325012175 putative CheW interface [polypeptide binding]; other site 1196325012176 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325012177 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325012178 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 1196325012179 dimerization interface [polypeptide binding]; other site 1196325012180 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1196325012181 agmatinase; Region: agmatinase; TIGR01230 1196325012182 oligomer interface [polypeptide binding]; other site 1196325012183 putative active site [active] 1196325012184 Mn binding site [ion binding]; other site 1196325012185 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 1196325012186 Na binding site [ion binding]; other site 1196325012187 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325012188 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325012189 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 1196325012190 putative dimerization interface [polypeptide binding]; other site 1196325012191 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 1196325012192 putative substrate translocation pore; other site 1196325012193 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1196325012194 EamA-like transporter family; Region: EamA; pfam00892 1196325012195 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1196325012196 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1196325012197 helicase 45; Provisional; Region: PTZ00424 1196325012198 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 1196325012199 ATP binding site [chemical binding]; other site 1196325012200 Mg++ binding site [ion binding]; other site 1196325012201 motif III; other site 1196325012202 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 1196325012203 nucleotide binding region [chemical binding]; other site 1196325012204 ATP-binding site [chemical binding]; other site 1196325012205 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1196325012206 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1196325012207 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1196325012208 ABC transporter signature motif; other site 1196325012209 Walker B; other site 1196325012210 D-loop; other site 1196325012211 H-loop/switch region; other site 1196325012212 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1196325012213 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 1196325012214 dimer interface [polypeptide binding]; other site 1196325012215 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 1196325012216 ATP binding site [chemical binding]; other site 1196325012217 Mg2+ binding site [ion binding]; other site 1196325012218 G-X-G motif; other site 1196325012219 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325012220 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325012221 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 1196325012222 dimerization interface [polypeptide binding]; other site 1196325012223 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196325012224 probable polyamine oxidase; Region: PLN02268 1196325012225 acetylornithine aminotransferase; Provisional; Region: PRK02627 1196325012226 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 1196325012227 inhibitor-cofactor binding pocket; inhibition site 1196325012228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325012229 catalytic residue [active] 1196325012230 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1196325012231 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 1196325012232 active site 1196325012233 ATP binding site [chemical binding]; other site 1196325012234 substrate binding site [chemical binding]; other site 1196325012235 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1196325012236 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1196325012237 Walker A/P-loop; other site 1196325012238 ATP binding site [chemical binding]; other site 1196325012239 Q-loop/lid; other site 1196325012240 ABC transporter signature motif; other site 1196325012241 Walker B; other site 1196325012242 D-loop; other site 1196325012243 H-loop/switch region; other site 1196325012244 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1196325012245 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1196325012246 Walker A/P-loop; other site 1196325012247 ATP binding site [chemical binding]; other site 1196325012248 Q-loop/lid; other site 1196325012249 ABC transporter signature motif; other site 1196325012250 Walker B; other site 1196325012251 D-loop; other site 1196325012252 H-loop/switch region; other site 1196325012253 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1196325012254 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1196325012255 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 1196325012256 dimer interface [polypeptide binding]; other site 1196325012257 conserved gate region; other site 1196325012258 putative PBP binding loops; other site 1196325012259 ABC-ATPase subunit interface; other site 1196325012260 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1196325012261 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 1196325012262 dimer interface [polypeptide binding]; other site 1196325012263 conserved gate region; other site 1196325012264 putative PBP binding loops; other site 1196325012265 ABC-ATPase subunit interface; other site 1196325012266 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1196325012267 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 1196325012268 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1196325012269 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 1196325012270 MltD lipid attachment motif; Region: MLTD_N; pfam06474 1196325012271 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1196325012272 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 1196325012273 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1196325012274 catalytic residue [active] 1196325012275 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1196325012276 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1196325012277 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1196325012278 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1196325012279 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 1196325012280 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1196325012281 RNA/DNA hybrid binding site [nucleotide binding]; other site 1196325012282 active site 1196325012283 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 1196325012284 active site 1196325012285 catalytic site [active] 1196325012286 substrate binding site [chemical binding]; other site 1196325012287 arginine decarboxylase; Provisional; Region: PRK15029 1196325012288 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1196325012289 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1196325012290 homodimer interface [polypeptide binding]; other site 1196325012291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325012292 catalytic residue [active] 1196325012293 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1196325012294 Predicted flavoprotein [General function prediction only]; Region: COG0431 1196325012295 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1196325012296 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1196325012297 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 1196325012298 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 1196325012299 DNA binding residues [nucleotide binding] 1196325012300 dimerization interface [polypeptide binding]; other site 1196325012301 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1196325012302 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 1196325012303 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1196325012304 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1196325012305 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1196325012306 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1196325012307 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1196325012308 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1196325012309 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1196325012310 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1196325012311 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1196325012312 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1196325012313 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1196325012314 4Fe-4S binding domain; Region: Fer4; pfam00037 1196325012315 4Fe-4S binding domain; Region: Fer4; pfam00037 1196325012316 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1196325012317 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 1196325012318 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 1196325012319 catalytic loop [active] 1196325012320 iron binding site [ion binding]; other site 1196325012321 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1196325012322 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 1196325012323 [4Fe-4S] binding site [ion binding]; other site 1196325012324 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 1196325012325 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 1196325012326 SLBB domain; Region: SLBB; pfam10531 1196325012327 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1196325012328 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1196325012329 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 1196325012330 putative dimer interface [polypeptide binding]; other site 1196325012331 [2Fe-2S] cluster binding site [ion binding]; other site 1196325012332 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 1196325012333 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1196325012334 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1196325012335 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1196325012336 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1196325012337 YhhN-like protein; Region: YhhN; pfam07947 1196325012338 ParB-like nuclease domain; Region: ParBc; pfam02195 1196325012339 Domain of unknown function (DUF932); Region: DUF932; pfam06067 1196325012340 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1196325012341 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 1196325012342 putative active site [active] 1196325012343 putative NTP binding site [chemical binding]; other site 1196325012344 putative nucleic acid binding site [nucleotide binding]; other site 1196325012345 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 1196325012346 putative active site [active] 1196325012347 putative NTP binding site [chemical binding]; other site 1196325012348 putative nucleic acid binding site [nucleotide binding]; other site 1196325012349 hypothetical protein; Reviewed; Region: PRK00024 1196325012350 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1196325012351 MPN+ (JAMM) motif; other site 1196325012352 Zinc-binding site [ion binding]; other site 1196325012353 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1196325012354 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1196325012355 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 1196325012356 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1196325012357 active site 1196325012358 Int/Topo IB signature motif; other site 1196325012359 DNA binding site [nucleotide binding] 1196325012360 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1196325012361 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1196325012362 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1196325012363 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1196325012364 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1196325012365 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1196325012366 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1196325012367 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1196325012368 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1196325012369 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1196325012370 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1196325012371 Protein export membrane protein; Region: SecD_SecF; pfam02355 1196325012372 hypothetical protein; Provisional; Region: PRK11280 1196325012373 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1196325012374 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 1196325012375 active site 1196325012376 dimerization interface [polypeptide binding]; other site 1196325012377 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1196325012378 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1196325012379 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 1196325012380 serine O-acetyltransferase; Region: cysE; TIGR01172 1196325012381 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 1196325012382 trimer interface [polypeptide binding]; other site 1196325012383 active site 1196325012384 substrate binding site [chemical binding]; other site 1196325012385 CoA binding site [chemical binding]; other site 1196325012386 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1196325012387 Rrf2 family protein; Region: rrf2_super; TIGR00738 1196325012388 cysteine desulfurase; Provisional; Region: PRK14012 1196325012389 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1196325012390 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196325012391 catalytic residue [active] 1196325012392 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1196325012393 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1196325012394 trimerization site [polypeptide binding]; other site 1196325012395 active site 1196325012396 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 1196325012397 co-chaperone HscB; Provisional; Region: hscB; PRK00294 1196325012398 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 1196325012399 HSP70 interaction site [polypeptide binding]; other site 1196325012400 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1196325012401 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1196325012402 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1196325012403 nucleotide binding site [chemical binding]; other site 1196325012404 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1196325012405 SBD interface [polypeptide binding]; other site 1196325012406 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1196325012407 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 1196325012408 catalytic loop [active] 1196325012409 iron binding site [ion binding]; other site 1196325012410 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 1196325012411 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 1196325012412 active site 1196325012413 multimer interface [polypeptide binding]; other site 1196325012414 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1196325012415 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 1196325012416 FeS/SAM binding site; other site 1196325012417 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 1196325012418 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 1196325012419 TPR motif; other site 1196325012420 binding surface 1196325012421 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 1196325012422 binding surface 1196325012423 TPR motif; other site 1196325012424 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1196325012425 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 1196325012426 non-specific DNA binding site [nucleotide binding]; other site 1196325012427 salt bridge; other site 1196325012428 sequence-specific DNA binding site [nucleotide binding]; other site 1196325012429 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1196325012430 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1196325012431 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1196325012432 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1196325012433 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1196325012434 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 1196325012435 dimer interface [polypeptide binding]; other site 1196325012436 motif 1; other site 1196325012437 active site 1196325012438 motif 2; other site 1196325012439 motif 3; other site 1196325012440 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 1196325012441 anticodon binding site; other site 1196325012442 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1196325012443 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1196325012444 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1196325012445 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1196325012446 Trp docking motif [polypeptide binding]; other site 1196325012447 active site 1196325012448 GTP-binding protein Der; Reviewed; Region: PRK00093 1196325012449 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1196325012450 G1 box; other site 1196325012451 GTP/Mg2+ binding site [chemical binding]; other site 1196325012452 Switch I region; other site 1196325012453 G2 box; other site 1196325012454 Switch II region; other site 1196325012455 G3 box; other site 1196325012456 G4 box; other site 1196325012457 G5 box; other site 1196325012458 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1196325012459 G1 box; other site 1196325012460 GTP/Mg2+ binding site [chemical binding]; other site 1196325012461 Switch I region; other site 1196325012462 G2 box; other site 1196325012463 G3 box; other site 1196325012464 Switch II region; other site 1196325012465 G4 box; other site 1196325012466 G5 box; other site 1196325012467 methionine aminotransferase; Validated; Region: PRK09082 1196325012468 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 1196325012469 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325012470 homodimer interface [polypeptide binding]; other site 1196325012471 catalytic residue [active] 1196325012472 C-N hydrolase family amidase; Provisional; Region: PRK10438 1196325012473 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 1196325012474 putative active site [active] 1196325012475 catalytic triad [active] 1196325012476 dimer interface [polypeptide binding]; other site 1196325012477 multimer interface [polypeptide binding]; other site 1196325012478 Restriction endonuclease; Region: Mrr_cat; pfam04471 1196325012479 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325012480 AAA domain; Region: AAA_23; pfam13476 1196325012481 Walker A/P-loop; other site 1196325012482 ATP binding site [chemical binding]; other site 1196325012483 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325012484 ABC transporter signature motif; other site 1196325012485 Walker B; other site 1196325012486 D-loop; other site 1196325012487 H-loop/switch region; other site 1196325012488 Putative helicase; Region: TraI_2; pfam07514 1196325012489 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1196325012490 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1196325012491 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1196325012492 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1196325012493 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 1196325012494 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1196325012495 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1196325012496 TraU protein; Region: TraU; cl06067 1196325012497 TraU protein; Region: TraU; cl06067 1196325012498 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 1196325012499 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 1196325012500 Catalytic site [active] 1196325012501 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 1196325012502 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1196325012503 active site 1196325012504 DNA binding site [nucleotide binding] 1196325012505 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1196325012506 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1196325012507 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1196325012508 Protein of unknown function (DUF327); Region: DUF327; cl00753 1196325012509 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1196325012510 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1196325012511 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 1196325012512 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 1196325012513 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 1196325012514 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 1196325012515 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 1196325012516 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_10; cd04667 1196325012517 nudix motif; other site 1196325012518 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325012519 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325012520 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 1196325012521 dimerization interface [polypeptide binding]; other site 1196325012522 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 1196325012523 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 1196325012524 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1196325012525 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 1196325012526 integrating conjugative element protein, PFL_4695 family; Region: ICE_PFL_4695; TIGR03765 1196325012527 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1196325012528 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1196325012529 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1196325012530 MPN+ (JAMM) motif; other site 1196325012531 Zinc-binding site [ion binding]; other site 1196325012532 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1196325012533 DNA topoisomerase III; Provisional; Region: PRK07726 1196325012534 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 1196325012535 active site 1196325012536 putative interdomain interaction site [polypeptide binding]; other site 1196325012537 putative metal-binding site [ion binding]; other site 1196325012538 putative nucleotide binding site [chemical binding]; other site 1196325012539 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 1196325012540 domain I; other site 1196325012541 DNA binding groove [nucleotide binding] 1196325012542 phosphate binding site [ion binding]; other site 1196325012543 domain II; other site 1196325012544 domain III; other site 1196325012545 nucleotide binding site [chemical binding]; other site 1196325012546 catalytic site [active] 1196325012547 domain IV; other site 1196325012548 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1196325012549 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1196325012550 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 1196325012551 non-specific DNA binding site [nucleotide binding]; other site 1196325012552 salt bridge; other site 1196325012553 sequence-specific DNA binding site [nucleotide binding]; other site 1196325012554 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1196325012555 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 1196325012556 dimer interface [polypeptide binding]; other site 1196325012557 ssDNA binding site [nucleotide binding]; other site 1196325012558 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1196325012559 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 1196325012560 integrating conjugative element protein, PFL_4669 family; Region: ICE_PFL4669; TIGR03761 1196325012561 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1196325012562 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1196325012563 ParB-like nuclease domain; Region: ParBc; pfam02195 1196325012564 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1196325012565 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 1196325012566 P-loop; other site 1196325012567 Magnesium ion binding site [ion binding]; other site 1196325012568 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 1196325012569 Magnesium ion binding site [ion binding]; other site 1196325012570 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1196325012571 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325012572 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1196325012573 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1196325012574 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1196325012575 classical (c) SDRs; Region: SDR_c; cd05233 1196325012576 NAD(P) binding site [chemical binding]; other site 1196325012577 active site 1196325012578 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1196325012579 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1196325012580 NAD(P) binding site [chemical binding]; other site 1196325012581 catalytic residues [active] 1196325012582 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 1196325012583 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1196325012584 Di-iron ligands [ion binding]; other site 1196325012585 Protein of unknown function (DUF3086); Region: DUF3086; pfam11285 1196325012586 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1196325012587 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 1196325012588 catalytic loop [active] 1196325012589 iron binding site [ion binding]; other site 1196325012590 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S] ferredoxin center (fused to the FAD...; Region: oxygenase_e_transfer_subunit; cd06213 1196325012591 FAD binding pocket [chemical binding]; other site 1196325012592 FAD binding motif [chemical binding]; other site 1196325012593 phosphate binding motif [ion binding]; other site 1196325012594 beta-alpha-beta structure motif; other site 1196325012595 NAD binding pocket [chemical binding]; other site 1196325012596 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 1196325012597 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1196325012598 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1196325012599 acyl-activating enzyme (AAE) consensus motif; other site 1196325012600 AMP binding site [chemical binding]; other site 1196325012601 active site 1196325012602 CoA binding site [chemical binding]; other site 1196325012603 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 1196325012604 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1196325012605 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196325012606 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1196325012607 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 1196325012608 [2Fe-2S] cluster binding site [ion binding]; other site 1196325012609 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 1196325012610 putative alpha subunit interface [polypeptide binding]; other site 1196325012611 putative active site [active] 1196325012612 putative substrate binding site [chemical binding]; other site 1196325012613 Fe binding site [ion binding]; other site 1196325012614 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 1196325012615 inter-subunit interface; other site 1196325012616 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 1196325012617 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 1196325012618 active site 1196325012619 metal binding site [ion binding]; metal-binding site 1196325012620 C-terminal domain of 2,3-dihydroxy-p-cumate-3,4-dioxygenase (PpCmtC); Region: PpCmtC_C; cd07258 1196325012621 putative active site [active] 1196325012622 putative metal binding site [ion binding]; other site 1196325012623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325012624 NAD(P) binding site [chemical binding]; other site 1196325012625 active site 1196325012626 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 1196325012627 [2Fe-2S] cluster binding site [ion binding]; other site 1196325012628 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 1196325012629 intersubunit interface [polypeptide binding]; other site 1196325012630 active site 1196325012631 Zn2+ binding site [ion binding]; other site 1196325012632 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196325012633 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325012634 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1196325012635 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1196325012636 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1196325012637 acetaldehyde dehydrogenase; Validated; Region: PRK08300 1196325012638 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1196325012639 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 1196325012640 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 1196325012641 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 1196325012642 active site 1196325012643 catalytic residues [active] 1196325012644 metal binding site [ion binding]; metal-binding site 1196325012645 DmpG-like communication domain; Region: DmpG_comm; pfam07836 1196325012646 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1196325012647 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 1196325012648 substrate binding site [chemical binding]; other site 1196325012649 oxyanion hole (OAH) forming residues; other site 1196325012650 trimer interface [polypeptide binding]; other site 1196325012651 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1196325012652 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325012653 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1196325012654 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1196325012655 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 1196325012656 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1196325012657 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 1196325012658 iron-sulfur cluster [ion binding]; other site 1196325012659 [2Fe-2S] cluster binding site [ion binding]; other site 1196325012660 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 1196325012661 beta subunit interface [polypeptide binding]; other site 1196325012662 alpha subunit interface [polypeptide binding]; other site 1196325012663 active site 1196325012664 substrate binding site [chemical binding]; other site 1196325012665 Fe binding site [ion binding]; other site 1196325012666 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 1196325012667 inter-subunit interface; other site 1196325012668 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 1196325012669 [2Fe-2S] cluster binding site [ion binding]; other site 1196325012670 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1196325012671 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196325012672 cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase; Region: BphB_TodD; TIGR03325 1196325012673 cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB)-like, classical (c) SDRs; Region: BphB-like_SDR_c; cd05348 1196325012674 NAD binding site [chemical binding]; other site 1196325012675 active site 1196325012676 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 1196325012677 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 1196325012678 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 1196325012679 active site 1196325012680 Fe binding site [ion binding]; other site 1196325012681 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1196325012682 acetaldehyde dehydrogenase; Validated; Region: PRK08300 1196325012683 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1196325012684 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 1196325012685 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 1196325012686 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 1196325012687 active site 1196325012688 catalytic residues [active] 1196325012689 metal binding site [ion binding]; metal-binding site 1196325012690 DmpG-like communication domain; Region: DmpG_comm; pfam07836 1196325012691 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 1196325012692 PAS domain; Region: PAS_9; pfam13426 1196325012693 putative active site [active] 1196325012694 heme pocket [chemical binding]; other site 1196325012695 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325012696 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 1196325012697 dimer interface [polypeptide binding]; other site 1196325012698 phosphorylation site [posttranslational modification] 1196325012699 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 1196325012700 ATP binding site [chemical binding]; other site 1196325012701 Mg2+ binding site [ion binding]; other site 1196325012702 G-X-G motif; other site 1196325012703 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196325012704 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 1196325012705 active site 1196325012706 phosphorylation site [posttranslational modification] 1196325012707 intermolecular recognition site; other site 1196325012708 dimerization interface [polypeptide binding]; other site 1196325012709 PAS domain S-box; Region: sensory_box; TIGR00229 1196325012710 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 1196325012711 putative active site [active] 1196325012712 heme pocket [chemical binding]; other site 1196325012713 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 1196325012714 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325012715 dimer interface [polypeptide binding]; other site 1196325012716 phosphorylation site [posttranslational modification] 1196325012717 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 1196325012718 ATP binding site [chemical binding]; other site 1196325012719 Mg2+ binding site [ion binding]; other site 1196325012720 G-X-G motif; other site 1196325012721 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1196325012722 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 1196325012723 intermolecular recognition site; other site 1196325012724 active site 1196325012725 dimerization interface [polypeptide binding]; other site 1196325012726 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 1196325012727 DNA binding residues [nucleotide binding] 1196325012728 dimerization interface [polypeptide binding]; other site 1196325012729 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1196325012730 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1196325012731 Protein export membrane protein; Region: SecD_SecF; cl14618 1196325012732 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1196325012733 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1196325012734 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325012735 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325012736 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1196325012737 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1196325012738 Bacterial transcriptional regulator; Region: IclR; pfam01614 1196325012739 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1196325012740 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1196325012741 active site 1196325012742 Int/Topo IB signature motif; other site 1196325012743 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325012744 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325012745 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_2; cd08464 1196325012746 putative substrate binding pocket [chemical binding]; other site 1196325012747 putative dimerization interface [polypeptide binding]; other site 1196325012748 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1196325012749 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1196325012750 putative NAD(P) binding site [chemical binding]; other site 1196325012751 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 1196325012752 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196325012753 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1196325012754 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 1196325012755 putative substrate translocation pore; other site 1196325012756 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 1196325012757 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1196325012758 putative active site pocket [active] 1196325012759 metal binding site [ion binding]; metal-binding site 1196325012760 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325012761 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325012762 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1196325012763 putative dimerization interface [polypeptide binding]; other site 1196325012764 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325012765 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325012766 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1196325012767 putative dimerization interface [polypeptide binding]; other site 1196325012768 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1196325012769 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1196325012770 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1196325012771 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1196325012772 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 1196325012773 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1196325012774 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 1196325012775 D-galactonate transporter; Region: 2A0114; TIGR00893 1196325012776 putative substrate translocation pore; other site 1196325012777 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1196325012778 DEAD-like helicases superfamily; Region: DEXDc2; smart00488 1196325012779 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 1196325012780 DEAD_2; Region: DEAD_2; pfam06733 1196325012781 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1196325012782 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1196325012783 NnrS protein; Region: NnrS; pfam05940 1196325012784 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1196325012785 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 1196325012786 active site 1196325012787 DNA binding site [nucleotide binding] 1196325012788 Int/Topo IB signature motif; other site 1196325012789 UreD urease accessory protein; Region: UreD; cl00530 1196325012790 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 1196325012791 alpha-gamma subunit interface [polypeptide binding]; other site 1196325012792 beta-gamma subunit interface [polypeptide binding]; other site 1196325012793 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 1196325012794 gamma-beta subunit interface [polypeptide binding]; other site 1196325012795 alpha-beta subunit interface [polypeptide binding]; other site 1196325012796 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1196325012797 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 1196325012798 subunit interactions [polypeptide binding]; other site 1196325012799 active site 1196325012800 flap region; other site 1196325012801 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1196325012802 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 1196325012803 dimer interface [polypeptide binding]; other site 1196325012804 catalytic residues [active] 1196325012805 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 1196325012806 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1196325012807 UreF; Region: UreF; pfam01730 1196325012808 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1196325012809 G1 box; other site 1196325012810 GTP/Mg2+ binding site [chemical binding]; other site 1196325012811 Switch I region; other site 1196325012812 Switch II region; other site 1196325012813 G4 box; other site 1196325012814 G5 box; other site 1196325012815 sensor protein RstB; Provisional; Region: PRK10604 1196325012816 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1196325012817 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1196325012818 active site 1196325012819 HIGH motif; other site 1196325012820 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1196325012821 KMSKS motif; other site 1196325012822 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1196325012823 tRNA binding surface [nucleotide binding]; other site 1196325012824 anticodon binding site; other site 1196325012825 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1196325012826 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1196325012827 active site 1196325012828 HIGH motif; other site 1196325012829 nucleotide binding site [chemical binding]; other site 1196325012830 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1196325012831 KMSKS motif; other site 1196325012832 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1196325012833 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 1196325012834 substrate binding site [chemical binding]; other site 1196325012835 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1196325012836 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1196325012837 putative active site [active] 1196325012838 putative metal binding site [ion binding]; other site 1196325012839 Penicillin amidase; Region: Penicil_amidase; pfam01804 1196325012840 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 1196325012841 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 1196325012842 active site 1196325012843 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 1196325012844 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 1196325012845 Mor transcription activator family; Region: Mor; cl02360 1196325012846 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 1196325012847 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 1196325012848 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1196325012849 Family of unknown function (DUF490); Region: DUF490; pfam04357 1196325012850 Family of unknown function (DUF490); Region: DUF490; pfam04357 1196325012851 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1196325012852 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1196325012853 Surface antigen; Region: Bac_surface_Ag; pfam01103 1196325012854 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1196325012855 Coenzyme A binding pocket [chemical binding]; other site 1196325012856 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 1196325012857 putative catalytic site [active] 1196325012858 putative phosphate binding site [ion binding]; other site 1196325012859 active site 1196325012860 metal binding site A [ion binding]; metal-binding site 1196325012861 DNA binding site [nucleotide binding] 1196325012862 putative AP binding site [nucleotide binding]; other site 1196325012863 putative metal binding site B [ion binding]; other site 1196325012864 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 1196325012865 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1196325012866 Serine hydrolase (FSH1); Region: FSH1; pfam03959 1196325012867 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 1196325012868 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1196325012869 active site 1196325012870 HIGH motif; other site 1196325012871 dimer interface [polypeptide binding]; other site 1196325012872 KMSKS motif; other site 1196325012873 Predicted ATPase [General function prediction only]; Region: COG1485 1196325012874 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1196325012875 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1196325012876 conserved cys residue [active] 1196325012877 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325012878 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 1196325012879 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1196325012880 active site 1196325012881 catalytic tetrad [active] 1196325012882 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 1196325012883 23S rRNA interface [nucleotide binding]; other site 1196325012884 L3 interface [polypeptide binding]; other site 1196325012885 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1196325012886 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 1196325012887 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1196325012888 [2Fe-2S] cluster binding site [ion binding]; other site 1196325012889 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1196325012890 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 1196325012891 Qi binding site; other site 1196325012892 intrachain domain interface; other site 1196325012893 interchain domain interface [polypeptide binding]; other site 1196325012894 heme bH binding site [chemical binding]; other site 1196325012895 heme bL binding site [chemical binding]; other site 1196325012896 Qo binding site; other site 1196325012897 interchain domain interface [polypeptide binding]; other site 1196325012898 intrachain domain interface; other site 1196325012899 Qi binding site; other site 1196325012900 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1196325012901 Qo binding site; other site 1196325012902 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 1196325012903 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 1196325012904 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1196325012905 C-terminal domain interface [polypeptide binding]; other site 1196325012906 putative GSH binding site (G-site) [chemical binding]; other site 1196325012907 dimer interface [polypeptide binding]; other site 1196325012908 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1196325012909 dimer interface [polypeptide binding]; other site 1196325012910 N-terminal domain interface [polypeptide binding]; other site 1196325012911 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1196325012912 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1196325012913 BON domain; Region: BON; pfam04972 1196325012914 BON domain; Region: BON; pfam04972 1196325012915 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 1196325012916 dimer interface [polypeptide binding]; other site 1196325012917 active site 1196325012918 hypothetical protein; Reviewed; Region: PRK12497 1196325012919 LppC putative lipoprotein; Region: LppC; pfam04348 1196325012920 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1196325012921 putative ligand binding site [chemical binding]; other site 1196325012922 Predicted methyltransferases [General function prediction only]; Region: COG0313 1196325012923 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1196325012924 putative SAM binding site [chemical binding]; other site 1196325012925 putative homodimer interface [polypeptide binding]; other site 1196325012926 cell division protein MraZ; Reviewed; Region: PRK00326 1196325012927 MraZ protein; Region: MraZ; pfam02381 1196325012928 MraZ protein; Region: MraZ; pfam02381 1196325012929 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1196325012930 MraW methylase family; Region: Methyltransf_5; cl17771 1196325012931 Cell division protein FtsL; Region: FtsL; pfam04999 1196325012932 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1196325012933 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1196325012934 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1196325012935 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1196325012936 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1196325012937 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1196325012938 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1196325012939 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1196325012940 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1196325012941 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1196325012942 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1196325012943 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1196325012944 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 1196325012945 Mg++ binding site [ion binding]; other site 1196325012946 putative catalytic motif [active] 1196325012947 putative substrate binding site [chemical binding]; other site 1196325012948 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 1196325012949 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1196325012950 cell division protein FtsW; Region: ftsW; TIGR02614 1196325012951 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1196325012952 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 1196325012953 active site 1196325012954 homodimer interface [polypeptide binding]; other site 1196325012955 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1196325012956 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1196325012957 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1196325012958 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1196325012959 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1196325012960 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1196325012961 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1196325012962 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1196325012963 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1196325012964 Cell division protein FtsQ; Region: FtsQ; pfam03799 1196325012965 cell division protein FtsA; Region: ftsA; TIGR01174 1196325012966 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1196325012967 nucleotide binding site [chemical binding]; other site 1196325012968 Cell division protein FtsA; Region: FtsA; pfam14450 1196325012969 cell division protein FtsZ; Validated; Region: PRK09330 1196325012970 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 1196325012971 nucleotide binding site [chemical binding]; other site 1196325012972 SulA interaction site; other site 1196325012973 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1196325012974 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1196325012975 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1196325012976 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 1196325012977 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1196325012978 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1196325012979 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; cl17351 1196325012980 nucleotide binding region [chemical binding]; other site 1196325012981 ATP-binding site [chemical binding]; other site 1196325012982 SEC-C motif; Region: SEC-C; pfam02810 1196325012983 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 1196325012984 heterotetramer interface [polypeptide binding]; other site 1196325012985 active site pocket [active] 1196325012986 cleavage site 1196325012987 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 1196325012988 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196325012989 putative C-terminal domain interface [polypeptide binding]; other site 1196325012990 putative GSH binding site (G-site) [chemical binding]; other site 1196325012991 putative dimer interface [polypeptide binding]; other site 1196325012992 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1196325012993 putative substrate binding pocket (H-site) [chemical binding]; other site 1196325012994 putative N-terminal domain interface [polypeptide binding]; other site 1196325012995 hypothetical protein; Provisional; Region: PRK08999 1196325012996 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 1196325012997 active site 1196325012998 8-oxo-dGMP binding site [chemical binding]; other site 1196325012999 nudix motif; other site 1196325013000 metal binding site [ion binding]; metal-binding site 1196325013001 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 1196325013002 thiamine phosphate binding site [chemical binding]; other site 1196325013003 active site 1196325013004 pyrophosphate binding site [ion binding]; other site 1196325013005 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1196325013006 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 1196325013007 dimerization interface [polypeptide binding]; other site 1196325013008 PAS domain; Region: PAS; smart00091 1196325013009 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1196325013010 putative active site [active] 1196325013011 heme pocket [chemical binding]; other site 1196325013012 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 1196325013013 dimer interface [polypeptide binding]; other site 1196325013014 phosphorylation site [posttranslational modification] 1196325013015 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 1196325013016 ATP binding site [chemical binding]; other site 1196325013017 Mg2+ binding site [ion binding]; other site 1196325013018 G-X-G motif; other site 1196325013019 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 1196325013020 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1196325013021 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1196325013022 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1196325013023 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1196325013024 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1196325013025 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1196325013026 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 1196325013027 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 1196325013028 muropeptide transporter; Validated; Region: ampG; cl17669 1196325013029 muropeptide transporter; Validated; Region: ampG; cl17669 1196325013030 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 1196325013031 DNA binding site [nucleotide binding] 1196325013032 active site 1196325013033 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1196325013034 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1196325013035 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 1196325013036 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1196325013037 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1196325013038 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 1196325013039 oligomerisation interface [polypeptide binding]; other site 1196325013040 mobile loop; other site 1196325013041 roof hairpin; other site 1196325013042 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1196325013043 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 1196325013044 ring oligomerisation interface [polypeptide binding]; other site 1196325013045 ATP/Mg binding site [chemical binding]; other site 1196325013046 stacking interactions; other site 1196325013047 hinge regions; other site 1196325013048 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1196325013049 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1196325013050 TrkA-N domain; Region: TrkA_N; pfam02254 1196325013051 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1196325013052 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1196325013053 conserved cys residue [active] 1196325013054 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325013055 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325013056 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196325013057 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325013058 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325013059 Isochorismatase family; Region: Isochorismatase; pfam00857 1196325013060 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 1196325013061 catalytic triad [active] 1196325013062 dimer interface [polypeptide binding]; other site 1196325013063 conserved cis-peptide bond; other site 1196325013064 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1196325013065 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1196325013066 substrate binding site [chemical binding]; other site 1196325013067 activation loop (A-loop); other site 1196325013068 Predicted ATPase [General function prediction only]; Region: COG3899 1196325013069 AAA ATPase domain; Region: AAA_16; pfam13191 1196325013070 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1196325013071 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1196325013072 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 1196325013073 dimer interface [polypeptide binding]; other site 1196325013074 phosphorylation site [posttranslational modification] 1196325013075 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 1196325013076 ATP binding site [chemical binding]; other site 1196325013077 Mg2+ binding site [ion binding]; other site 1196325013078 G-X-G motif; other site 1196325013079 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196325013080 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 1196325013081 DNA binding site [nucleotide binding] 1196325013082 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1196325013083 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 1196325013084 active site 1196325013085 phosphorylation site [posttranslational modification] 1196325013086 intermolecular recognition site; other site 1196325013087 dimerization interface [polypeptide binding]; other site 1196325013088 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 1196325013089 DNA binding residues [nucleotide binding] 1196325013090 dimerization interface [polypeptide binding]; other site 1196325013091 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 1196325013092 active site 1196325013093 phosphorylation site [posttranslational modification] 1196325013094 intermolecular recognition site; other site 1196325013095 dimerization interface [polypeptide binding]; other site 1196325013096 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1196325013097 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1196325013098 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1196325013099 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1196325013100 Domain of unknown function (DUF4034); Region: DUF4034; pfam13226 1196325013101 Membrane fusogenic activity; Region: BMFP; pfam04380 1196325013102 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1196325013103 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1196325013104 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1196325013105 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 1196325013106 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 1196325013107 motif II; other site 1196325013108 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1196325013109 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 1196325013110 active site 1196325013111 DNA binding site [nucleotide binding] 1196325013112 Int/Topo IB signature motif; other site 1196325013113 Protein of unknown function, DUF484; Region: DUF484; cl17449 1196325013114 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1196325013115 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1196325013116 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1196325013117 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1196325013118 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1196325013119 active site 1196325013120 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1196325013121 substrate binding site [chemical binding]; other site 1196325013122 catalytic residues [active] 1196325013123 dimer interface [polypeptide binding]; other site 1196325013124 frataxin-like protein; Provisional; Region: cyaY; PRK00446 1196325013125 putative iron binding site [ion binding]; other site 1196325013126 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1196325013127 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1196325013128 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1196325013129 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1196325013130 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1196325013131 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1196325013132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 1196325013133 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1196325013134 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1196325013135 conserved cys residue [active] 1196325013136 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1196325013137 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1196325013138 polyphosphate kinase; Provisional; Region: PRK05443 1196325013139 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1196325013140 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1196325013141 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1196325013142 putative active site [active] 1196325013143 catalytic site [active] 1196325013144 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1196325013145 putative domain interface [polypeptide binding]; other site 1196325013146 putative active site [active] 1196325013147 catalytic site [active] 1196325013148 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1196325013149 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1196325013150 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 1196325013151 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1196325013152 catalytic residues [active] 1196325013153 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1196325013154 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1196325013155 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 1196325013156 RNA binding site [nucleotide binding]; other site 1196325013157 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 1196325013158 multimer interface [polypeptide binding]; other site 1196325013159 Walker A motif; other site 1196325013160 ATP binding site [chemical binding]; other site 1196325013161 Walker B motif; other site 1196325013162 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1196325013163 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1196325013164 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 1196325013165 catalytic loop [active] 1196325013166 iron binding site [ion binding]; other site 1196325013167 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 1196325013168 FAD binding pocket [chemical binding]; other site 1196325013169 FAD binding motif [chemical binding]; other site 1196325013170 phosphate binding motif [ion binding]; other site 1196325013171 beta-alpha-beta structure motif; other site 1196325013172 NAD binding pocket [chemical binding]; other site 1196325013173 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 1196325013174 putative active site pocket [active] 1196325013175 dimerization interface [polypeptide binding]; other site 1196325013176 putative catalytic residue [active] 1196325013177 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1196325013178 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1196325013179 NAD(P) binding site [chemical binding]; other site 1196325013180 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 1196325013181 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1196325013182 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1196325013183 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1196325013184 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1196325013185 Walker A/P-loop; other site 1196325013186 ATP binding site [chemical binding]; other site 1196325013187 Q-loop/lid; other site 1196325013188 ABC transporter signature motif; other site 1196325013189 Walker B; other site 1196325013190 D-loop; other site 1196325013191 H-loop/switch region; other site 1196325013192 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325013193 Walker A/P-loop; other site 1196325013194 ATP binding site [chemical binding]; other site 1196325013195 Q-loop/lid; other site 1196325013196 ABC transporter signature motif; other site 1196325013197 Walker B; other site 1196325013198 D-loop; other site 1196325013199 H-loop/switch region; other site 1196325013200 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1196325013201 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1196325013202 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 1196325013203 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1196325013204 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325013205 Uncharacterized conserved protein [Function unknown]; Region: COG2947 1196325013206 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1196325013207 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1196325013208 Cell division protein ZapA; Region: ZapA; pfam05164 1196325013209 TIGR02449 family protein; Region: TIGR02449 1196325013210 hypothetical protein; Reviewed; Region: PRK02166 1196325013211 proline aminopeptidase P II; Provisional; Region: PRK10879 1196325013212 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1196325013213 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 1196325013214 active site 1196325013215 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1196325013216 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1196325013217 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 1196325013218 active site 2 [active] 1196325013219 active site 1 [active] 1196325013220 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1196325013221 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 1196325013222 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1196325013223 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1196325013224 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1196325013225 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 1196325013226 dimer interface [polypeptide binding]; other site 1196325013227 conserved gate region; other site 1196325013228 putative PBP binding loops; other site 1196325013229 ABC-ATPase subunit interface; other site 1196325013230 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 1196325013231 dimer interface [polypeptide binding]; other site 1196325013232 conserved gate region; other site 1196325013233 putative PBP binding loops; other site 1196325013234 ABC-ATPase subunit interface; other site 1196325013235 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1196325013236 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1196325013237 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 1196325013238 lipoyl attachment site [posttranslational modification]; other site 1196325013239 glycine dehydrogenase; Provisional; Region: PRK12566 1196325013240 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 1196325013241 tetramer interface [polypeptide binding]; other site 1196325013242 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325013243 catalytic residue [active] 1196325013244 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 1196325013245 tetramer interface [polypeptide binding]; other site 1196325013246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325013247 catalytic residue [active] 1196325013248 conserverd hypothetical protein; Region: TIGR02448 1196325013249 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1196325013250 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1196325013251 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 1196325013252 Walker A motif; other site 1196325013253 ATP binding site [chemical binding]; other site 1196325013254 Walker B motif; other site 1196325013255 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196325013256 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 1196325013257 putative DNA binding site [nucleotide binding]; other site 1196325013258 putative Zn2+ binding site [ion binding]; other site 1196325013259 AsnC family; Region: AsnC_trans_reg; pfam01037 1196325013260 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1196325013261 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 1196325013262 putative active site; other site 1196325013263 putative metal binding residues [ion binding]; other site 1196325013264 signature motif; other site 1196325013265 putative triphosphate binding site [ion binding]; other site 1196325013266 acetylornithine deacetylase; Provisional; Region: PRK05111 1196325013267 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1196325013268 metal binding site [ion binding]; metal-binding site 1196325013269 putative dimer interface [polypeptide binding]; other site 1196325013270 N-acetylglutamate synthase; Validated; Region: PRK05279 1196325013271 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 1196325013272 putative feedback inhibition sensing region; other site 1196325013273 putative nucleotide binding site [chemical binding]; other site 1196325013274 putative substrate binding site [chemical binding]; other site 1196325013275 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325013276 Coenzyme A binding pocket [chemical binding]; other site 1196325013277 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1196325013278 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1196325013279 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1196325013280 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1196325013281 putative aminotransferase; Validated; Region: PRK07480 1196325013282 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 1196325013283 inhibitor-cofactor binding pocket; inhibition site 1196325013284 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325013285 catalytic residue [active] 1196325013286 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1196325013287 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1196325013288 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1196325013289 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1196325013290 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1196325013291 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325013292 Walker A/P-loop; other site 1196325013293 ATP binding site [chemical binding]; other site 1196325013294 Q-loop/lid; other site 1196325013295 ABC transporter signature motif; other site 1196325013296 Walker B; other site 1196325013297 D-loop; other site 1196325013298 H-loop/switch region; other site 1196325013299 TOBE domain; Region: TOBE_2; pfam08402 1196325013300 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1196325013301 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 1196325013302 dimer interface [polypeptide binding]; other site 1196325013303 conserved gate region; other site 1196325013304 putative PBP binding loops; other site 1196325013305 ABC-ATPase subunit interface; other site 1196325013306 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1196325013307 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 1196325013308 dimer interface [polypeptide binding]; other site 1196325013309 conserved gate region; other site 1196325013310 putative PBP binding loops; other site 1196325013311 ABC-ATPase subunit interface; other site 1196325013312 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1196325013313 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1196325013314 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325013315 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325013316 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1196325013317 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325013318 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325013319 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1196325013320 Uncharacterized small protein [Function unknown]; Region: COG5583 1196325013321 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1196325013322 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1196325013323 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1196325013324 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 1196325013325 dimer interface [polypeptide binding]; other site 1196325013326 conserved gate region; other site 1196325013327 putative PBP binding loops; other site 1196325013328 ABC-ATPase subunit interface; other site 1196325013329 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1196325013330 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 1196325013331 dimer interface [polypeptide binding]; other site 1196325013332 conserved gate region; other site 1196325013333 putative PBP binding loops; other site 1196325013334 ABC-ATPase subunit interface; other site 1196325013335 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1196325013336 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1196325013337 Walker A/P-loop; other site 1196325013338 ATP binding site [chemical binding]; other site 1196325013339 Q-loop/lid; other site 1196325013340 ABC transporter signature motif; other site 1196325013341 Walker B; other site 1196325013342 D-loop; other site 1196325013343 H-loop/switch region; other site 1196325013344 TOBE-like domain; Region: TOBE_3; pfam12857 1196325013345 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1196325013346 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1196325013347 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 1196325013348 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1196325013349 Walker A motif; other site 1196325013350 ATP binding site [chemical binding]; other site 1196325013351 Walker B motif; other site 1196325013352 arginine finger; other site 1196325013353 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1196325013354 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1196325013355 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1196325013356 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 1196325013357 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 1196325013358 active site 1196325013359 maltose O-acetyltransferase; Provisional; Region: PRK10092 1196325013360 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1196325013361 active site 1196325013362 substrate binding site [chemical binding]; other site 1196325013363 trimer interface [polypeptide binding]; other site 1196325013364 CoA binding site [chemical binding]; other site 1196325013365 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1196325013366 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1196325013367 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 1196325013368 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 1196325013369 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1196325013370 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1196325013371 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 1196325013372 substrate binding pocket [chemical binding]; other site 1196325013373 Eukaryotic homologues of bacterial periplasmic substrate binding proteins; Region: PBPe; smart00079 1196325013374 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 1196325013375 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1196325013376 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1196325013377 ligand binding site [chemical binding]; other site 1196325013378 NAD binding site [chemical binding]; other site 1196325013379 tetramer interface [polypeptide binding]; other site 1196325013380 catalytic site [active] 1196325013381 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1196325013382 L-serine binding site [chemical binding]; other site 1196325013383 ACT domain interface; other site 1196325013384 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1196325013385 FAD binding domain; Region: FAD_binding_4; pfam01565 1196325013386 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1196325013387 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 1196325013388 SdiA-regulated; Region: SdiA-regulated; pfam06977 1196325013389 SdiA-regulated; Region: SdiA-regulated; cd09971 1196325013390 putative active site [active] 1196325013391 SdiA-regulated; Region: SdiA-regulated; pfam06977 1196325013392 SdiA-regulated; Region: SdiA-regulated; cd09971 1196325013393 putative active site [active] 1196325013394 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 1196325013395 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1196325013396 active site 1196325013397 dimer interface [polypeptide binding]; other site 1196325013398 threonine dehydratase; Reviewed; Region: PRK09224 1196325013399 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 1196325013400 tetramer interface [polypeptide binding]; other site 1196325013401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325013402 catalytic residue [active] 1196325013403 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1196325013404 putative Ile/Val binding site [chemical binding]; other site 1196325013405 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1196325013406 putative Ile/Val binding site [chemical binding]; other site 1196325013407 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 1196325013408 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1196325013409 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 1196325013410 motif II; other site 1196325013411 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 1196325013412 putative active site [active] 1196325013413 Ap4A binding site [chemical binding]; other site 1196325013414 nudix motif; other site 1196325013415 putative metal binding site [ion binding]; other site 1196325013416 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 1196325013417 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1196325013418 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1196325013419 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1196325013420 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1196325013421 NRDE protein; Region: NRDE; cl01315 1196325013422 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1196325013423 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1196325013424 thymidylate synthase; Provisional; Region: thyA; PRK13821 1196325013425 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 1196325013426 dimerization interface [polypeptide binding]; other site 1196325013427 active site 1196325013428 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1196325013429 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1196325013430 DNA binding residues [nucleotide binding] 1196325013431 dimer interface [polypeptide binding]; other site 1196325013432 putative metal binding site [ion binding]; other site 1196325013433 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1196325013434 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1196325013435 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1196325013436 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1196325013437 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325013438 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 1196325013439 dimerization interface [polypeptide binding]; other site 1196325013440 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 1196325013441 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325013442 Walker A/P-loop; other site 1196325013443 ATP binding site [chemical binding]; other site 1196325013444 Q-loop/lid; other site 1196325013445 ABC transporter signature motif; other site 1196325013446 Walker B; other site 1196325013447 D-loop; other site 1196325013448 H-loop/switch region; other site 1196325013449 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 1196325013450 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 1196325013451 dimer interface [polypeptide binding]; other site 1196325013452 conserved gate region; other site 1196325013453 putative PBP binding loops; other site 1196325013454 ABC-ATPase subunit interface; other site 1196325013455 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 1196325013456 dimer interface [polypeptide binding]; other site 1196325013457 conserved gate region; other site 1196325013458 putative PBP binding loops; other site 1196325013459 ABC-ATPase subunit interface; other site 1196325013460 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1196325013461 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1196325013462 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1196325013463 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 1196325013464 ATP binding site [chemical binding]; other site 1196325013465 putative Mg++ binding site [ion binding]; other site 1196325013466 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 1196325013467 nucleotide binding region [chemical binding]; other site 1196325013468 ATP-binding site [chemical binding]; other site 1196325013469 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_31; cd04690 1196325013470 nudix motif; other site 1196325013471 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1196325013472 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325013473 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 1196325013474 putative dimerization interface [polypeptide binding]; other site 1196325013475 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1196325013476 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1196325013477 GlpM protein; Region: GlpM; pfam06942 1196325013478 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1196325013479 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 1196325013480 active site 1196325013481 phosphorylation site [posttranslational modification] 1196325013482 intermolecular recognition site; other site 1196325013483 dimerization interface [polypeptide binding]; other site 1196325013484 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 1196325013485 Walker A motif; other site 1196325013486 ATP binding site [chemical binding]; other site 1196325013487 Walker B motif; other site 1196325013488 arginine finger; other site 1196325013489 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196325013490 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1196325013491 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 1196325013492 dimer interface [polypeptide binding]; other site 1196325013493 phosphorylation site [posttranslational modification] 1196325013494 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 1196325013495 Mg2+ binding site [ion binding]; other site 1196325013496 G-X-G motif; other site 1196325013497 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1196325013498 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1196325013499 Walker A/P-loop; other site 1196325013500 ATP binding site [chemical binding]; other site 1196325013501 Q-loop/lid; other site 1196325013502 ABC transporter signature motif; other site 1196325013503 Walker B; other site 1196325013504 D-loop; other site 1196325013505 H-loop/switch region; other site 1196325013506 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1196325013507 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 1196325013508 dimer interface [polypeptide binding]; other site 1196325013509 conserved gate region; other site 1196325013510 putative PBP binding loops; other site 1196325013511 ABC-ATPase subunit interface; other site 1196325013512 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 1196325013513 dimer interface [polypeptide binding]; other site 1196325013514 conserved gate region; other site 1196325013515 putative PBP binding loops; other site 1196325013516 ABC-ATPase subunit interface; other site 1196325013517 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1196325013518 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 1196325013519 substrate binding pocket [chemical binding]; other site 1196325013520 membrane-bound complex binding site; other site 1196325013521 hinge residues; other site 1196325013522 Leucine rich repeat; Region: LRR_8; pfam13855 1196325013523 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1196325013524 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1196325013525 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1196325013526 glycerol kinase; Provisional; Region: glpK; PRK00047 1196325013527 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1196325013528 N- and C-terminal domain interface [polypeptide binding]; other site 1196325013529 active site 1196325013530 MgATP binding site [chemical binding]; other site 1196325013531 catalytic site [active] 1196325013532 metal binding site [ion binding]; metal-binding site 1196325013533 glycerol binding site [chemical binding]; other site 1196325013534 homotetramer interface [polypeptide binding]; other site 1196325013535 homodimer interface [polypeptide binding]; other site 1196325013536 protein IIAGlc interface [polypeptide binding]; other site 1196325013537 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; cd00333 1196325013538 amphipathic channel; other site 1196325013539 Asn-Pro-Ala signature motifs; other site 1196325013540 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 1196325013541 putative deacylase active site [active] 1196325013542 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1196325013543 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1196325013544 Walker A/P-loop; other site 1196325013545 ATP binding site [chemical binding]; other site 1196325013546 Q-loop/lid; other site 1196325013547 ABC transporter signature motif; other site 1196325013548 Walker B; other site 1196325013549 D-loop; other site 1196325013550 H-loop/switch region; other site 1196325013551 TOBE domain; Region: TOBE_2; pfam08402 1196325013552 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1196325013553 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1196325013554 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1196325013555 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1196325013556 The MopB_1 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. These members belong to...; Region: MopB_1; cd02762 1196325013557 putative [Fe4-S4] binding site [ion binding]; other site 1196325013558 putative molybdopterin cofactor binding site [chemical binding]; other site 1196325013559 The MopB_CT_1 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_1; cd02782 1196325013560 putative molybdopterin cofactor binding site; other site 1196325013561 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1196325013562 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1196325013563 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 1196325013564 non-specific DNA binding site [nucleotide binding]; other site 1196325013565 salt bridge; other site 1196325013566 sequence-specific DNA binding site [nucleotide binding]; other site 1196325013567 Predicted transcriptional regulator [Transcription]; Region: COG2932 1196325013568 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 1196325013569 dimer interface [polypeptide binding]; other site 1196325013570 substrate binding site [chemical binding]; other site 1196325013571 metal binding sites [ion binding]; metal-binding site 1196325013572 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 1196325013573 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1196325013574 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1196325013575 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1196325013576 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325013577 Coenzyme A binding pocket [chemical binding]; other site 1196325013578 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1196325013579 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1196325013580 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1196325013581 ethanolamine permease; Region: 2A0305; TIGR00908 1196325013582 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1196325013583 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1196325013584 NAD(P) binding site [chemical binding]; other site 1196325013585 catalytic residues [active] 1196325013586 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1196325013587 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1196325013588 Sulfatase; Region: Sulfatase; pfam00884 1196325013589 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1196325013590 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 1196325013591 putative active site [active] 1196325013592 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1196325013593 AAA domain; Region: AAA_28; pfam13521 1196325013594 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1196325013595 Cache domain; Region: Cache_2; pfam08269 1196325013596 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 1196325013597 dimerization interface [polypeptide binding]; other site 1196325013598 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325013599 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325013600 dimer interface [polypeptide binding]; other site 1196325013601 putative CheW interface [polypeptide binding]; other site 1196325013602 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1196325013603 Predicted membrane protein [Function unknown]; Region: COG3326 1196325013604 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1196325013605 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325013606 LysR family transcriptional regulator; Provisional; Region: PRK14997 1196325013607 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 1196325013608 dimerization interface [polypeptide binding]; other site 1196325013609 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1196325013610 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 1196325013611 SIR2-like domain; Region: SIR2_2; pfam13289 1196325013612 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325013613 ABC transporter signature motif; other site 1196325013614 Walker B; other site 1196325013615 D-loop; other site 1196325013616 H-loop/switch region; other site 1196325013617 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1196325013618 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1196325013619 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 1196325013620 active site 1196325013621 catalytic residues [active] 1196325013622 DNA binding site [nucleotide binding] 1196325013623 Int/Topo IB signature motif; other site 1196325013624 Prokaryotic E2 family B; Region: Prok-E2_B; pfam14461 1196325013625 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 1196325013626 ATP binding site [chemical binding]; other site 1196325013627 substrate interface [chemical binding]; other site 1196325013628 azoreductase; Reviewed; Region: PRK00170 1196325013629 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1196325013630 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1196325013631 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196325013632 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1196325013633 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 1196325013634 non-specific DNA binding site [nucleotide binding]; other site 1196325013635 salt bridge; other site 1196325013636 sequence-specific DNA binding site [nucleotide binding]; other site 1196325013637 Cupin domain; Region: Cupin_2; pfam07883 1196325013638 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1196325013639 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1196325013640 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1196325013641 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1196325013642 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1196325013643 Ribosomal Pseudoknot; T1E_5821 1196325013644 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1196325013645 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1196325013646 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1196325013647 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 1196325013648 putative active site [active] 1196325013649 putative NTP binding site [chemical binding]; other site 1196325013650 putative nucleic acid binding site [nucleotide binding]; other site 1196325013651 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1196325013652 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1196325013653 metal binding site [ion binding]; metal-binding site 1196325013654 putative dimer interface [polypeptide binding]; other site 1196325013655 RHS Repeat; Region: RHS_repeat; cl11982 1196325013656 RHS Repeat; Region: RHS_repeat; cl11982 1196325013657 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 1196325013658 binding surface 1196325013659 TPR motif; other site 1196325013660 TPR repeat; Region: TPR_11; pfam13414 1196325013661 RHS protein; Region: RHS; pfam03527 1196325013662 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1196325013663 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1196325013664 RHS Repeat; Region: RHS_repeat; pfam05593 1196325013665 RHS protein; Region: RHS; pfam03527 1196325013666 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1196325013667 A nuclease of the HNH/ENDO VII superfamily with conserved LHH; Region: LHH; pfam14411 1196325013668 PAAR motif; Region: PAAR_motif; pfam05488 1196325013669 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1196325013670 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1196325013671 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1196325013672 RHS protein; Region: RHS; pfam03527 1196325013673 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1196325013674 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 1196325013675 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 1196325013676 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 1196325013677 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1196325013678 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1196325013679 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1196325013680 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1196325013681 GAF domain; Region: GAF; pfam01590 1196325013682 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 1196325013683 Walker A motif; other site 1196325013684 ATP binding site [chemical binding]; other site 1196325013685 Walker B motif; other site 1196325013686 arginine finger; other site 1196325013687 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1196325013688 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1196325013689 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 1196325013690 heme-binding site [chemical binding]; other site 1196325013691 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 1196325013692 FAD binding pocket [chemical binding]; other site 1196325013693 FAD binding motif [chemical binding]; other site 1196325013694 phosphate binding motif [ion binding]; other site 1196325013695 beta-alpha-beta structure motif; other site 1196325013696 NAD binding pocket [chemical binding]; other site 1196325013697 Heme binding pocket [chemical binding]; other site 1196325013698 disulfide bond formation protein B; Provisional; Region: PRK02110 1196325013699 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 1196325013700 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1196325013701 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1196325013702 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1196325013703 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 1196325013704 D-pathway; other site 1196325013705 Putative ubiquinol binding site [chemical binding]; other site 1196325013706 Low-spin heme (heme b) binding site [chemical binding]; other site 1196325013707 Putative water exit pathway; other site 1196325013708 Binuclear center (heme o3/CuB) [ion binding]; other site 1196325013709 K-pathway; other site 1196325013710 Putative proton exit pathway; other site 1196325013711 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 1196325013712 Subunit I/III interface [polypeptide binding]; other site 1196325013713 Subunit III/IV interface [polypeptide binding]; other site 1196325013714 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1196325013715 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 1196325013716 UbiA prenyltransferase family; Region: UbiA; pfam01040 1196325013717 aminotransferase; Validated; Region: PRK08175 1196325013718 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 1196325013719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325013720 homodimer interface [polypeptide binding]; other site 1196325013721 catalytic residue [active] 1196325013722 Flagellin N-methylase; Region: FliB; pfam03692 1196325013723 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1196325013724 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1196325013725 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 1196325013726 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325013727 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1196325013728 DNA binding residues [nucleotide binding] 1196325013729 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1196325013730 FecR protein; Region: FecR; pfam04773 1196325013731 Secretin and TonB N terminus short domain; Region: STN; smart00965 1196325013732 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1196325013733 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 1196325013734 N-terminal plug; other site 1196325013735 ligand-binding site [chemical binding]; other site 1196325013736 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1196325013737 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1196325013738 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 1196325013739 active site residue [active] 1196325013740 selenophosphate synthetase; Provisional; Region: PRK00943 1196325013741 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 1196325013742 dimerization interface [polypeptide binding]; other site 1196325013743 putative ATP binding site [chemical binding]; other site 1196325013744 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 1196325013745 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 1196325013746 substrate binding pocket [chemical binding]; other site 1196325013747 membrane-bound complex binding site; other site 1196325013748 hinge residues; other site 1196325013749 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1196325013750 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325013751 Walker A/P-loop; other site 1196325013752 ATP binding site [chemical binding]; other site 1196325013753 Q-loop/lid; other site 1196325013754 ABC transporter signature motif; other site 1196325013755 Walker B; other site 1196325013756 D-loop; other site 1196325013757 H-loop/switch region; other site 1196325013758 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 1196325013759 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 1196325013760 dimer interface [polypeptide binding]; other site 1196325013761 conserved gate region; other site 1196325013762 putative PBP binding loops; other site 1196325013763 ABC-ATPase subunit interface; other site 1196325013764 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1196325013765 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1196325013766 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1196325013767 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1196325013768 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325013769 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1196325013770 Coenzyme A binding pocket [chemical binding]; other site 1196325013771 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1196325013772 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1196325013773 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 1196325013774 dimer interface [polypeptide binding]; other site 1196325013775 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196325013776 ligand binding site [chemical binding]; other site 1196325013777 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1196325013778 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_3; cd06151 1196325013779 homotrimer interaction site [polypeptide binding]; other site 1196325013780 putative active site [active] 1196325013781 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 1196325013782 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1196325013783 putative substrate translocation pore; other site 1196325013784 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325013785 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 1196325013786 putative effector binding pocket; other site 1196325013787 dimerization interface [polypeptide binding]; other site 1196325013788 Uncharacterized conserved small protein [Function unknown]; Region: COG5639 1196325013789 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1196325013790 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325013791 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 1196325013792 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 1196325013793 substrate binding pocket [chemical binding]; other site 1196325013794 membrane-bound complex binding site; other site 1196325013795 hinge residues; other site 1196325013796 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 1196325013797 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1196325013798 Walker A/P-loop; other site 1196325013799 ATP binding site [chemical binding]; other site 1196325013800 Q-loop/lid; other site 1196325013801 ABC transporter signature motif; other site 1196325013802 Walker B; other site 1196325013803 D-loop; other site 1196325013804 H-loop/switch region; other site 1196325013805 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1196325013806 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 1196325013807 dimer interface [polypeptide binding]; other site 1196325013808 conserved gate region; other site 1196325013809 putative PBP binding loops; other site 1196325013810 ABC-ATPase subunit interface; other site 1196325013811 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1196325013812 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 1196325013813 BCCT family transporter; Region: BCCT; cl00569 1196325013814 serine O-acetyltransferase; Region: cysE; TIGR01172 1196325013815 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 1196325013816 trimer interface [polypeptide binding]; other site 1196325013817 active site 1196325013818 substrate binding site [chemical binding]; other site 1196325013819 CoA binding site [chemical binding]; other site 1196325013820 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325013821 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 1196325013822 substrate binding pocket [chemical binding]; other site 1196325013823 membrane-bound complex binding site; other site 1196325013824 hinge residues; other site 1196325013825 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 1196325013826 dimer interface [polypeptide binding]; other site 1196325013827 conserved gate region; other site 1196325013828 putative PBP binding loops; other site 1196325013829 ABC-ATPase subunit interface; other site 1196325013830 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 1196325013831 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1196325013832 Walker A/P-loop; other site 1196325013833 ATP binding site [chemical binding]; other site 1196325013834 Q-loop/lid; other site 1196325013835 ABC transporter signature motif; other site 1196325013836 Walker B; other site 1196325013837 D-loop; other site 1196325013838 H-loop/switch region; other site 1196325013839 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1196325013840 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196325013841 active site 1196325013842 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1196325013843 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196325013844 active site 1196325013845 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1196325013846 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 1196325013847 active site 1196325013848 non-prolyl cis peptide bond; other site 1196325013849 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1196325013850 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1196325013851 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1196325013852 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1196325013853 Walker A/P-loop; other site 1196325013854 ATP binding site [chemical binding]; other site 1196325013855 Q-loop/lid; other site 1196325013856 ABC transporter signature motif; other site 1196325013857 Walker B; other site 1196325013858 D-loop; other site 1196325013859 H-loop/switch region; other site 1196325013860 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 1196325013861 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 1196325013862 dimer interface [polypeptide binding]; other site 1196325013863 conserved gate region; other site 1196325013864 putative PBP binding loops; other site 1196325013865 ABC-ATPase subunit interface; other site 1196325013866 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 1196325013867 PAS domain; Region: PAS_9; pfam13426 1196325013868 putative active site [active] 1196325013869 heme pocket [chemical binding]; other site 1196325013870 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325013871 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325013872 metal binding site [ion binding]; metal-binding site 1196325013873 active site 1196325013874 I-site; other site 1196325013875 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 1196325013876 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1196325013877 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 1196325013878 Di-iron ligands [ion binding]; other site 1196325013879 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 1196325013880 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1196325013881 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 1196325013882 PAS fold; Region: PAS_3; pfam08447 1196325013883 putative active site [active] 1196325013884 heme pocket [chemical binding]; other site 1196325013885 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325013886 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325013887 metal binding site [ion binding]; metal-binding site 1196325013888 active site 1196325013889 I-site; other site 1196325013890 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 1196325013891 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325013892 active site 1196325013893 phosphorylation site [posttranslational modification] 1196325013894 intermolecular recognition site; other site 1196325013895 dimerization interface [polypeptide binding]; other site 1196325013896 HDOD domain; Region: HDOD; pfam08668 1196325013897 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 1196325013898 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 1196325013899 inhibitor-cofactor binding pocket; inhibition site 1196325013900 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325013901 catalytic residue [active] 1196325013902 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1196325013903 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1196325013904 tetramerization interface [polypeptide binding]; other site 1196325013905 NAD(P) binding site [chemical binding]; other site 1196325013906 catalytic residues [active] 1196325013907 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 1196325013908 hypothetical protein; Provisional; Region: PRK06156 1196325013909 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1196325013910 active site 1196325013911 metal binding site [ion binding]; metal-binding site 1196325013912 FOG: CBS domain [General function prediction only]; Region: COG0517 1196325013913 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 1196325013914 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1196325013915 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 1196325013916 putative deacylase active site [active] 1196325013917 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1196325013918 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1196325013919 dimer interface [polypeptide binding]; other site 1196325013920 active site residues [active] 1196325013921 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1196325013922 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1196325013923 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 1196325013924 LysE type translocator; Region: LysE; cl00565 1196325013925 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1196325013926 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1196325013927 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1196325013928 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325013929 Walker A/P-loop; other site 1196325013930 ATP binding site [chemical binding]; other site 1196325013931 Q-loop/lid; other site 1196325013932 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196325013933 ABC transporter signature motif; other site 1196325013934 Walker B; other site 1196325013935 D-loop; other site 1196325013936 ABC transporter; Region: ABC_tran_2; pfam12848 1196325013937 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196325013938 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 1196325013939 malate:quinone oxidoreductase; Validated; Region: PRK05257 1196325013940 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1196325013941 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 1196325013942 LysE type translocator; Region: LysE; cl00565 1196325013943 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1196325013944 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 1196325013945 S-adenosylmethionine binding site [chemical binding]; other site 1196325013946 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 1196325013947 ThiS interaction site; other site 1196325013948 putative active site [active] 1196325013949 tetramer interface [polypeptide binding]; other site 1196325013950 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1196325013951 thiS-thiF/thiG interaction site; other site 1196325013952 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1196325013953 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1196325013954 Transglycosylase; Region: Transgly; cl17702 1196325013955 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1196325013956 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325013957 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 1196325013958 DNA binding residues [nucleotide binding] 1196325013959 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1196325013960 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1196325013961 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1196325013962 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325013963 Walker A/P-loop; other site 1196325013964 ATP binding site [chemical binding]; other site 1196325013965 Q-loop/lid; other site 1196325013966 ABC transporter signature motif; other site 1196325013967 Walker B; other site 1196325013968 D-loop; other site 1196325013969 H-loop/switch region; other site 1196325013970 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1196325013971 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1196325013972 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 1196325013973 P loop; other site 1196325013974 GTP binding site [chemical binding]; other site 1196325013975 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1196325013976 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1196325013977 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1196325013978 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1196325013979 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1196325013980 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1196325013981 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 1196325013982 S-adenosylmethionine binding site [chemical binding]; other site 1196325013983 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1196325013984 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1196325013985 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 1196325013986 active site residue [active] 1196325013987 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 1196325013988 active site residue [active] 1196325013989 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196325013990 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325013991 Bacterial transcriptional repressor; Region: TetR; pfam13972 1196325013992 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1196325013993 NAD(P) binding site [chemical binding]; other site 1196325013994 catalytic residues [active] 1196325013995 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196325013996 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 1196325013997 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1196325013998 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1196325013999 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1196325014000 active site 1196325014001 (T/H)XGH motif; other site 1196325014002 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1196325014003 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1196325014004 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1196325014005 DNA binding site [nucleotide binding] 1196325014006 catalytic residue [active] 1196325014007 H2TH interface [polypeptide binding]; other site 1196325014008 putative catalytic residues [active] 1196325014009 turnover-facilitating residue; other site 1196325014010 intercalation triad [nucleotide binding]; other site 1196325014011 8OG recognition residue [nucleotide binding]; other site 1196325014012 putative reading head residues; other site 1196325014013 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1196325014014 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1196325014015 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1196325014016 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 1196325014017 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1196325014018 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1196325014019 putative RNA binding site [nucleotide binding]; other site 1196325014020 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 1196325014021 S-adenosylmethionine binding site [chemical binding]; other site 1196325014022 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1196325014023 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325014024 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325014025 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 1196325014026 dimerization interface [polypeptide binding]; other site 1196325014027 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1196325014028 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1196325014029 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1196325014030 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 1196325014031 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1196325014032 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1196325014033 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1196325014034 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325014035 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1196325014036 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325014037 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1196325014038 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 1196325014039 active site 1196325014040 phosphorylation site [posttranslational modification] 1196325014041 intermolecular recognition site; other site 1196325014042 dimerization interface [polypeptide binding]; other site 1196325014043 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 1196325014044 DNA binding site [nucleotide binding] 1196325014045 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1196325014046 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1196325014047 Flavoprotein; Region: Flavoprotein; pfam02441 1196325014048 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1196325014049 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1196325014050 trimer interface [polypeptide binding]; other site 1196325014051 active site 1196325014052 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 1196325014053 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1196325014054 active site 1196325014055 substrate binding site [chemical binding]; other site 1196325014056 metal binding site [ion binding]; metal-binding site 1196325014057 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 1196325014058 feedback inhibition sensing region; other site 1196325014059 homohexameric interface [polypeptide binding]; other site 1196325014060 nucleotide binding site [chemical binding]; other site 1196325014061 N-acetyl-L-glutamate binding site [chemical binding]; other site 1196325014062 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196325014063 active site 1196325014064 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1196325014065 putative active site [active] 1196325014066 putative catalytic site [active] 1196325014067 putative DNA binding site [nucleotide binding]; other site 1196325014068 putative phosphate binding site [ion binding]; other site 1196325014069 metal binding site A [ion binding]; metal-binding site 1196325014070 putative AP binding site [nucleotide binding]; other site 1196325014071 putative metal binding site B [ion binding]; other site 1196325014072 Tic20-like protein; Region: Tic20; pfam09685 1196325014073 ribonuclease PH; Reviewed; Region: rph; PRK00173 1196325014074 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1196325014075 hexamer interface [polypeptide binding]; other site 1196325014076 active site 1196325014077 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1196325014078 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1196325014079 Lipopolysaccharide-assembly; Region: LptE; cl01125 1196325014080 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1196325014081 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1196325014082 HIGH motif; other site 1196325014083 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1196325014084 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1196325014085 active site 1196325014086 KMSKS motif; other site 1196325014087 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1196325014088 tRNA binding surface [nucleotide binding]; other site 1196325014089 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1196325014090 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 1196325014091 putative active site [active] 1196325014092 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196325014093 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196325014094 ligand binding site [chemical binding]; other site 1196325014095 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 1196325014096 active site 1196325014097 substrate binding pocket [chemical binding]; other site 1196325014098 dimer interface [polypeptide binding]; other site 1196325014099 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1196325014100 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1196325014101 dimer interface [polypeptide binding]; other site 1196325014102 catalytic site [active] 1196325014103 putative active site [active] 1196325014104 putative substrate binding site [chemical binding]; other site 1196325014105 peroxidase; Provisional; Region: PRK15000 1196325014106 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 1196325014107 dimer interface [polypeptide binding]; other site 1196325014108 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1196325014109 catalytic triad [active] 1196325014110 peroxidatic and resolving cysteines [active] 1196325014111 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1196325014112 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1196325014113 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1196325014114 heme binding site [chemical binding]; other site 1196325014115 ferroxidase pore; other site 1196325014116 ferroxidase diiron center [ion binding]; other site 1196325014117 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 1196325014118 putative GSH binding site [chemical binding]; other site 1196325014119 catalytic residues [active] 1196325014120 HutD; Region: HutD; pfam05962 1196325014121 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1196325014122 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325014123 DNA-binding site [nucleotide binding]; DNA binding site 1196325014124 UTRA domain; Region: UTRA; pfam07702 1196325014125 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 1196325014126 Metallo-dependent hydrolases, subgroup D 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_E; cd01313 1196325014127 active site 1196325014128 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 1196325014129 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1196325014130 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1196325014131 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1196325014132 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1196325014133 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 1196325014134 AMP binding site [chemical binding]; other site 1196325014135 metal binding site [ion binding]; metal-binding site 1196325014136 active site 1196325014137 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 1196325014138 homodimer interface [polypeptide binding]; other site 1196325014139 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1196325014140 active site pocket [active] 1196325014141 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1196325014142 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325014143 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325014144 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1196325014145 dimerization interface [polypeptide binding]; other site 1196325014146 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1196325014147 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1196325014148 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1196325014149 agmatinase; Region: agmatinase; TIGR01230 1196325014150 oligomer interface [polypeptide binding]; other site 1196325014151 putative active site [active] 1196325014152 Mn binding site [ion binding]; other site 1196325014153 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1196325014154 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1196325014155 Predicted ATPase [General function prediction only]; Region: COG1485 1196325014156 DinB family; Region: DinB; cl17821 1196325014157 DinB superfamily; Region: DinB_2; pfam12867 1196325014158 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 1196325014159 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1196325014160 Predicted membrane protein [Function unknown]; Region: COG1238 1196325014161 Protein of unknown function, DUF; Region: DUF411; cl01142 1196325014162 putative protease; Provisional; Region: PRK15452 1196325014163 Peptidase family U32; Region: Peptidase_U32; pfam01136 1196325014164 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1196325014165 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1196325014166 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 1196325014167 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1196325014168 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 1196325014169 BON domain; Region: BON; pfam04972 1196325014170 BON domain; Region: BON; pfam04972 1196325014171 BON domain; Region: BON; pfam04972 1196325014172 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1196325014173 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 1196325014174 active site 1196325014175 phosphorylation site [posttranslational modification] 1196325014176 intermolecular recognition site; other site 1196325014177 dimerization interface [polypeptide binding]; other site 1196325014178 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 1196325014179 Walker A motif; other site 1196325014180 ATP binding site [chemical binding]; other site 1196325014181 Walker B motif; other site 1196325014182 arginine finger; other site 1196325014183 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196325014184 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 1196325014185 dimerization interface [polypeptide binding]; other site 1196325014186 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1196325014187 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 1196325014188 dimer interface [polypeptide binding]; other site 1196325014189 phosphorylation site [posttranslational modification] 1196325014190 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 1196325014191 ATP binding site [chemical binding]; other site 1196325014192 Mg2+ binding site [ion binding]; other site 1196325014193 G-X-G motif; other site 1196325014194 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1196325014195 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1196325014196 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 1196325014197 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1196325014198 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 1196325014199 amidase catalytic site [active] 1196325014200 Zn binding residues [ion binding]; other site 1196325014201 substrate binding site [chemical binding]; other site 1196325014202 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1196325014203 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325014204 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325014205 metal binding site [ion binding]; metal-binding site 1196325014206 active site 1196325014207 I-site; other site 1196325014208 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1196325014209 putative catalytic site [active] 1196325014210 putative metal binding site [ion binding]; other site 1196325014211 putative phosphate binding site [ion binding]; other site 1196325014212 putative catalytic site [active] 1196325014213 putative phosphate binding site [ion binding]; other site 1196325014214 putative metal binding site [ion binding]; other site 1196325014215 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 1196325014216 catalytic residues [active] 1196325014217 hinge region; other site 1196325014218 alpha helical domain; other site 1196325014219 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1196325014220 Cytochrome c; Region: Cytochrom_C; cl11414 1196325014221 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1196325014222 G1 box; other site 1196325014223 GTP/Mg2+ binding site [chemical binding]; other site 1196325014224 Switch I region; other site 1196325014225 G2 box; other site 1196325014226 G3 box; other site 1196325014227 Switch II region; other site 1196325014228 G4 box; other site 1196325014229 G5 box; other site 1196325014230 DNA polymerase I; Provisional; Region: PRK05755 1196325014231 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1196325014232 active site 1196325014233 metal binding site 1 [ion binding]; metal-binding site 1196325014234 putative 5' ssDNA interaction site; other site 1196325014235 metal binding site 3; metal-binding site 1196325014236 metal binding site 2 [ion binding]; metal-binding site 1196325014237 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1196325014238 putative DNA binding site [nucleotide binding]; other site 1196325014239 putative metal binding site [ion binding]; other site 1196325014240 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 1196325014241 active site 1196325014242 catalytic site [active] 1196325014243 substrate binding site [chemical binding]; other site 1196325014244 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1196325014245 active site 1196325014246 DNA binding site [nucleotide binding] 1196325014247 catalytic site [active] 1196325014248 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 1196325014249 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1196325014250 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 1196325014251 putative active site [active] 1196325014252 putative substrate binding site [chemical binding]; other site 1196325014253 ATP binding site [chemical binding]; other site 1196325014254 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 1196325014255 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 1196325014256 metal binding site [ion binding]; metal-binding site 1196325014257 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1196325014258 metal binding site 2 [ion binding]; metal-binding site 1196325014259 putative DNA binding helix; other site 1196325014260 metal binding site 1 [ion binding]; metal-binding site 1196325014261 dimer interface [polypeptide binding]; other site 1196325014262 structural Zn2+ binding site [ion binding]; other site 1196325014263 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1196325014264 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1196325014265 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1196325014266 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 1196325014267 ABC-ATPase subunit interface; other site 1196325014268 dimer interface [polypeptide binding]; other site 1196325014269 putative PBP binding regions; other site 1196325014270 hydroperoxidase II; Provisional; Region: katE; PRK11249 1196325014271 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 1196325014272 tetramer interface [polypeptide binding]; other site 1196325014273 heme binding pocket [chemical binding]; other site 1196325014274 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1196325014275 domain interactions; other site 1196325014276 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1196325014277 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1196325014278 Walker A/P-loop; other site 1196325014279 ATP binding site [chemical binding]; other site 1196325014280 Q-loop/lid; other site 1196325014281 ABC transporter signature motif; other site 1196325014282 Walker B; other site 1196325014283 D-loop; other site 1196325014284 H-loop/switch region; other site 1196325014285 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 1196325014286 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 1196325014287 dimer interface [polypeptide binding]; other site 1196325014288 conserved gate region; other site 1196325014289 ABC-ATPase subunit interface; other site 1196325014290 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1196325014291 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1196325014292 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 1196325014293 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1196325014294 Cu(I) binding site [ion binding]; other site 1196325014295 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1196325014296 UbiA prenyltransferase family; Region: UbiA; pfam01040 1196325014297 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1196325014298 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1196325014299 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 1196325014300 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 1196325014301 Subunit III/VIIa interface [polypeptide binding]; other site 1196325014302 Phospholipid binding site [chemical binding]; other site 1196325014303 Subunit I/III interface [polypeptide binding]; other site 1196325014304 Subunit III/VIb interface [polypeptide binding]; other site 1196325014305 Subunit III/VIa interface; other site 1196325014306 Subunit III/Vb interface [polypeptide binding]; other site 1196325014307 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1196325014308 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1196325014309 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 1196325014310 Subunit I/III interface [polypeptide binding]; other site 1196325014311 D-pathway; other site 1196325014312 Subunit I/VIIc interface [polypeptide binding]; other site 1196325014313 Subunit I/IV interface [polypeptide binding]; other site 1196325014314 Subunit I/II interface [polypeptide binding]; other site 1196325014315 Low-spin heme (heme a) binding site [chemical binding]; other site 1196325014316 Subunit I/VIIa interface [polypeptide binding]; other site 1196325014317 Subunit I/VIa interface [polypeptide binding]; other site 1196325014318 Dimer interface; other site 1196325014319 Putative water exit pathway; other site 1196325014320 Binuclear center (heme a3/CuB) [ion binding]; other site 1196325014321 K-pathway; other site 1196325014322 Subunit I/Vb interface [polypeptide binding]; other site 1196325014323 Putative proton exit pathway; other site 1196325014324 Subunit I/VIb interface; other site 1196325014325 Subunit I/VIc interface [polypeptide binding]; other site 1196325014326 Electron transfer pathway; other site 1196325014327 Subunit I/VIIIb interface [polypeptide binding]; other site 1196325014328 Subunit I/VIIb interface [polypeptide binding]; other site 1196325014329 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1196325014330 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1196325014331 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1196325014332 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1196325014333 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1196325014334 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 1196325014335 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 1196325014336 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1196325014337 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1196325014338 putative acyl-acceptor binding pocket; other site 1196325014339 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 1196325014340 DNA-binding site [nucleotide binding]; DNA binding site 1196325014341 RNA-binding motif; other site 1196325014342 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1196325014343 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 1196325014344 S-adenosylmethionine binding site [chemical binding]; other site 1196325014345 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1196325014346 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1196325014347 metal binding site [ion binding]; metal-binding site 1196325014348 dimer interface [polypeptide binding]; other site 1196325014349 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 1196325014350 PMP-22/EMP/MP20/Claudin family; Region: PMP22_Claudin; cl17758 1196325014351 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1196325014352 NdvC_like proteins in this family are putative bacterial beta-(1,6)-glucosyltransferase; Region: CESA_NdvC_like; cd06435 1196325014353 Ligand binding site; other site 1196325014354 DXD motif; other site 1196325014355 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1196325014356 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 1196325014357 putative ATP binding site [chemical binding]; other site 1196325014358 putative substrate interface [chemical binding]; other site 1196325014359 Fe-S metabolism associated domain; Region: SufE; cl00951 1196325014360 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1196325014361 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 1196325014362 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196325014363 catalytic residue [active] 1196325014364 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 1196325014365 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 1196325014366 putative trimer interface [polypeptide binding]; other site 1196325014367 putative CoA binding site [chemical binding]; other site 1196325014368 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 1196325014369 ArsC family; Region: ArsC; pfam03960 1196325014370 putative catalytic residues [active] 1196325014371 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 1196325014372 active site 1196325014373 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 1196325014374 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1196325014375 [4Fe-4S] binding site [ion binding]; other site 1196325014376 molybdopterin cofactor binding site; other site 1196325014377 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 1196325014378 molybdopterin cofactor binding site; other site 1196325014379 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1196325014380 Flavodoxin; Region: Flavodoxin_1; pfam00258 1196325014381 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; cd06199 1196325014382 FAD binding pocket [chemical binding]; other site 1196325014383 FAD binding motif [chemical binding]; other site 1196325014384 catalytic residues [active] 1196325014385 NAD binding pocket [chemical binding]; other site 1196325014386 phosphate binding motif [ion binding]; other site 1196325014387 beta-alpha-beta structure motif; other site 1196325014388 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1196325014389 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1196325014390 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1196325014391 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 1196325014392 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1196325014393 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1196325014394 putative ligand binding site [chemical binding]; other site 1196325014395 NAD binding site [chemical binding]; other site 1196325014396 catalytic site [active] 1196325014397 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1196325014398 classical (c) SDRs; Region: SDR_c; cd05233 1196325014399 NAD(P) binding site [chemical binding]; other site 1196325014400 active site 1196325014401 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 1196325014402 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1196325014403 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 1196325014404 D-galactonate transporter; Region: 2A0114; TIGR00893 1196325014405 putative substrate translocation pore; other site 1196325014406 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196325014407 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325014408 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1196325014409 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325014410 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 1196325014411 dimerization interface [polypeptide binding]; other site 1196325014412 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1196325014413 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1196325014414 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1196325014415 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1196325014416 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 1196325014417 salt bridge; other site 1196325014418 non-specific DNA binding site [nucleotide binding]; other site 1196325014419 sequence-specific DNA binding site [nucleotide binding]; other site 1196325014420 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 1196325014421 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 1196325014422 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 1196325014423 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 1196325014424 HSP70 interaction site [polypeptide binding]; other site 1196325014425 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1196325014426 substrate binding site [polypeptide binding]; other site 1196325014427 dimer interface [polypeptide binding]; other site 1196325014428 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1196325014429 putative chaperone; Provisional; Region: PRK11678 1196325014430 nucleotide binding site [chemical binding]; other site 1196325014431 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1196325014432 SBD interface [polypeptide binding]; other site 1196325014433 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 1196325014434 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1196325014435 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1196325014436 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 1196325014437 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1196325014438 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325014439 Coenzyme A binding pocket [chemical binding]; other site 1196325014440 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1196325014441 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325014442 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 1196325014443 dimerization interface [polypeptide binding]; other site 1196325014444 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196325014445 FecR protein; Region: FecR; pfam04773 1196325014446 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325014447 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1196325014448 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1196325014449 Flavin binding site [chemical binding]; other site 1196325014450 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 1196325014451 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1196325014452 putative ligand binding site [chemical binding]; other site 1196325014453 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 1196325014454 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1196325014455 putative ligand binding site [chemical binding]; other site 1196325014456 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1196325014457 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1196325014458 Walker A/P-loop; other site 1196325014459 ATP binding site [chemical binding]; other site 1196325014460 Q-loop/lid; other site 1196325014461 ABC transporter signature motif; other site 1196325014462 Walker B; other site 1196325014463 D-loop; other site 1196325014464 H-loop/switch region; other site 1196325014465 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1196325014466 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 1196325014467 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1196325014468 TM-ABC transporter signature motif; other site 1196325014469 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 1196325014470 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1196325014471 TM-ABC transporter signature motif; other site 1196325014472 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1196325014473 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1196325014474 Flavin binding site [chemical binding]; other site 1196325014475 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1196325014476 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 1196325014477 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 1196325014478 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 1196325014479 active site 1196325014480 dimer interface [polypeptide binding]; other site 1196325014481 non-prolyl cis peptide bond; other site 1196325014482 insertion regions; other site 1196325014483 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1196325014484 acyl-activating enzyme (AAE) consensus motif; other site 1196325014485 CoA binding site [chemical binding]; other site 1196325014486 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1196325014487 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1196325014488 Walker A/P-loop; other site 1196325014489 ATP binding site [chemical binding]; other site 1196325014490 Q-loop/lid; other site 1196325014491 ABC transporter signature motif; other site 1196325014492 Walker B; other site 1196325014493 D-loop; other site 1196325014494 H-loop/switch region; other site 1196325014495 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 1196325014496 TM-ABC transporter signature motif; other site 1196325014497 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1196325014498 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 1196325014499 TM-ABC transporter signature motif; other site 1196325014500 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 1196325014501 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1196325014502 putative ligand binding site [chemical binding]; other site 1196325014503 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1196325014504 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 1196325014505 Walker A motif; other site 1196325014506 ATP binding site [chemical binding]; other site 1196325014507 Walker B motif; other site 1196325014508 arginine finger; other site 1196325014509 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1196325014510 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1196325014511 Flavin binding site [chemical binding]; other site 1196325014512 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1196325014513 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196325014514 Walker A/P-loop; other site 1196325014515 ATP binding site [chemical binding]; other site 1196325014516 Q-loop/lid; other site 1196325014517 ABC transporter signature motif; other site 1196325014518 Walker B; other site 1196325014519 D-loop; other site 1196325014520 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1196325014521 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 1196325014522 dimer interface [polypeptide binding]; other site 1196325014523 active site 1196325014524 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators; Region: HTH_MerR2; cd04769 1196325014525 DNA binding residues [nucleotide binding] 1196325014526 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1196325014527 putative dimer interface [polypeptide binding]; other site 1196325014528 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1196325014529 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1196325014530 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1196325014531 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1196325014532 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1196325014533 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1196325014534 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1196325014535 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1196325014536 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1196325014537 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1196325014538 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1196325014539 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1196325014540 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1196325014541 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1196325014542 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1196325014543 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1196325014544 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1196325014545 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1196325014546 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1196325014547 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 1196325014548 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 1196325014549 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 1196325014550 substrate binding pocket [chemical binding]; other site 1196325014551 catalytic triad [active] 1196325014552 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1196325014553 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1196325014554 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196325014555 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325014556 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1196325014557 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196325014558 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325014559 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1196325014560 classical (c) SDRs; Region: SDR_c; cd05233 1196325014561 NAD(P) binding site [chemical binding]; other site 1196325014562 active site 1196325014563 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325014564 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1196325014565 NAD(P) binding site [chemical binding]; other site 1196325014566 active site 1196325014567 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1196325014568 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1196325014569 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1196325014570 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1196325014571 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1196325014572 aspartate aminotransferase; Provisional; Region: PRK05764 1196325014573 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 1196325014574 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325014575 homodimer interface [polypeptide binding]; other site 1196325014576 catalytic residue [active] 1196325014577 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1196325014578 extended (e) SDRs; Region: SDR_e; cd08946 1196325014579 NAD(P) binding site [chemical binding]; other site 1196325014580 active site 1196325014581 substrate binding site [chemical binding]; other site 1196325014582 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1196325014583 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 1196325014584 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1196325014585 thiamine pyrophosphate protein; Validated; Region: PRK08199 1196325014586 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1196325014587 PYR/PP interface [polypeptide binding]; other site 1196325014588 dimer interface [polypeptide binding]; other site 1196325014589 TPP binding site [chemical binding]; other site 1196325014590 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1196325014591 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 1196325014592 TPP-binding site [chemical binding]; other site 1196325014593 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1196325014594 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1196325014595 tetramerization interface [polypeptide binding]; other site 1196325014596 NAD(P) binding site [chemical binding]; other site 1196325014597 catalytic residues [active] 1196325014598 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1196325014599 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325014600 DNA-binding site [nucleotide binding]; DNA binding site 1196325014601 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1196325014602 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1196325014603 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 1196325014604 dimerization interface [polypeptide binding]; other site 1196325014605 ligand binding site [chemical binding]; other site 1196325014606 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 1196325014607 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1196325014608 TM-ABC transporter signature motif; other site 1196325014609 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 1196325014610 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 1196325014611 TM-ABC transporter signature motif; other site 1196325014612 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1196325014613 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1196325014614 Walker A/P-loop; other site 1196325014615 ATP binding site [chemical binding]; other site 1196325014616 Q-loop/lid; other site 1196325014617 ABC transporter signature motif; other site 1196325014618 Walker B; other site 1196325014619 D-loop; other site 1196325014620 H-loop/switch region; other site 1196325014621 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1196325014622 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1196325014623 Walker A/P-loop; other site 1196325014624 ATP binding site [chemical binding]; other site 1196325014625 Q-loop/lid; other site 1196325014626 ABC transporter signature motif; other site 1196325014627 Walker B; other site 1196325014628 D-loop; other site 1196325014629 H-loop/switch region; other site 1196325014630 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 1196325014631 homotrimer interaction site [polypeptide binding]; other site 1196325014632 putative active site [active] 1196325014633 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1196325014634 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 1196325014635 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325014636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325014637 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 1196325014638 dimerization interface [polypeptide binding]; other site 1196325014639 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1196325014640 aspartate racemase; Region: asp_race; TIGR00035 1196325014641 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1196325014642 catalytic triad [active] 1196325014643 PRC-barrel domain; Region: PRC; pfam05239 1196325014644 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1196325014645 MgtC family; Region: MgtC; pfam02308 1196325014646 CheB methylesterase; Region: CheB_methylest; pfam01339 1196325014647 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1196325014648 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1196325014649 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 1196325014650 S-adenosylmethionine binding site [chemical binding]; other site 1196325014651 PAS fold; Region: PAS; pfam00989 1196325014652 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 1196325014653 putative active site [active] 1196325014654 heme pocket [chemical binding]; other site 1196325014655 PAS domain; Region: PAS_10; pfam13596 1196325014656 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1196325014657 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 1196325014658 putative active site [active] 1196325014659 heme pocket [chemical binding]; other site 1196325014660 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 1196325014661 dimer interface [polypeptide binding]; other site 1196325014662 phosphorylation site [posttranslational modification] 1196325014663 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 1196325014664 ATP binding site [chemical binding]; other site 1196325014665 Mg2+ binding site [ion binding]; other site 1196325014666 G-X-G motif; other site 1196325014667 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325014668 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 1196325014669 active site 1196325014670 phosphorylation site [posttranslational modification] 1196325014671 intermolecular recognition site; other site 1196325014672 dimerization interface [polypeptide binding]; other site 1196325014673 FGAM-synthase; Provisional; Region: PHA03366 1196325014674 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1196325014675 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 1196325014676 S-adenosylmethionine binding site [chemical binding]; other site 1196325014677 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1196325014678 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1196325014679 dimer interface [polypeptide binding]; other site 1196325014680 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1196325014681 NADP binding site [chemical binding]; other site 1196325014682 catalytic residues [active] 1196325014683 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1196325014684 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325014685 DNA-binding site [nucleotide binding]; DNA binding site 1196325014686 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1196325014687 Protein of unknown function (DUF998); Region: DUF998; pfam06197 1196325014688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325014689 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325014690 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 1196325014691 putative substrate binding pocket [chemical binding]; other site 1196325014692 putative dimerization interface [polypeptide binding]; other site 1196325014693 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1196325014694 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1196325014695 MarR family; Region: MarR_2; cl17246 1196325014696 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 1196325014697 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1196325014698 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 1196325014699 N-terminal plug; other site 1196325014700 ligand-binding site [chemical binding]; other site 1196325014701 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1196325014702 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 1196325014703 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1196325014704 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 1196325014705 catalytic residues [active] 1196325014706 catalytic nucleophile [active] 1196325014707 Recombinase; Region: Recombinase; pfam07508 1196325014708 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1196325014709 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1196325014710 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 1196325014711 catalytic residues [active] 1196325014712 catalytic nucleophile [active] 1196325014713 Recombinase; Region: Recombinase; pfam07508 1196325014714 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 1196325014715 active site 1196325014716 metal binding site [ion binding]; metal-binding site 1196325014717 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 1196325014718 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 1196325014719 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1196325014720 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 1196325014721 ATP binding site [chemical binding]; other site 1196325014722 Mg++ binding site [ion binding]; other site 1196325014723 motif III; other site 1196325014724 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 1196325014725 nucleotide binding region [chemical binding]; other site 1196325014726 ATP-binding site [chemical binding]; other site 1196325014727 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1196325014728 EamA-like transporter family; Region: EamA; pfam00892 1196325014729 EamA-like transporter family; Region: EamA; pfam00892 1196325014730 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1196325014731 active site 1196325014732 catalytic site [active] 1196325014733 substrate binding site [chemical binding]; other site 1196325014734 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1196325014735 LabA_like proteins; Region: LabA; cd10911 1196325014736 putative metal binding site [ion binding]; other site 1196325014737 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 1196325014738 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1196325014739 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 1196325014740 ATP binding site [chemical binding]; other site 1196325014741 putative Mg++ binding site [ion binding]; other site 1196325014742 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 1196325014743 nucleotide binding region [chemical binding]; other site 1196325014744 ATP-binding site [chemical binding]; other site 1196325014745 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 1196325014746 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1196325014747 Cation efflux family; Region: Cation_efflux; cl00316 1196325014748 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1196325014749 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196325014750 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 1196325014751 putative DNA binding site [nucleotide binding]; other site 1196325014752 putative Zn2+ binding site [ion binding]; other site 1196325014753 AsnC family; Region: AsnC_trans_reg; pfam01037 1196325014754 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 1196325014755 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 1196325014756 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1196325014757 active site 1196325014758 AMP nucleosidase; Provisional; Region: PRK08292 1196325014759 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1196325014760 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1196325014761 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196325014762 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196325014763 active site 1196325014764 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1196325014765 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1196325014766 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 1196325014767 dimer interface [polypeptide binding]; other site 1196325014768 phosphorylation site [posttranslational modification] 1196325014769 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 1196325014770 ATP binding site [chemical binding]; other site 1196325014771 Mg2+ binding site [ion binding]; other site 1196325014772 G-X-G motif; other site 1196325014773 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 1196325014774 dimer interface [polypeptide binding]; other site 1196325014775 substrate binding site [chemical binding]; other site 1196325014776 ATP binding site [chemical binding]; other site 1196325014777 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 1196325014778 thiamine phosphate binding site [chemical binding]; other site 1196325014779 active site 1196325014780 pyrophosphate binding site [ion binding]; other site 1196325014781 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1196325014782 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 1196325014783 inhibitor-cofactor binding pocket; inhibition site 1196325014784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325014785 catalytic residue [active] 1196325014786 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1196325014787 Sel1-like repeats; Region: SEL1; smart00671 1196325014788 Sel1-like repeats; Region: SEL1; smart00671 1196325014789 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 1196325014790 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1196325014791 PhoH-like protein; Region: PhoH; pfam02562 1196325014792 metal-binding heat shock protein; Provisional; Region: PRK00016 1196325014793 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1196325014794 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 1196325014795 Transporter associated domain; Region: CorC_HlyC; smart01091 1196325014796 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1196325014797 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1196325014798 putative active site [active] 1196325014799 catalytic triad [active] 1196325014800 putative dimer interface [polypeptide binding]; other site 1196325014801 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 1196325014802 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 1196325014803 dimerization interface [polypeptide binding]; other site 1196325014804 putative DNA binding site [nucleotide binding]; other site 1196325014805 putative Zn2+ binding site [ion binding]; other site 1196325014806 Protein of unknown function, DUF479; Region: DUF479; cl01203 1196325014807 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1196325014808 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1196325014809 putative acyl-acceptor binding pocket; other site 1196325014810 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1196325014811 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196325014812 Predicted permeases [General function prediction only]; Region: COG0679 1196325014813 aromatic amino acid transporter; Provisional; Region: PRK10238 1196325014814 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 1196325014815 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1196325014816 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1196325014817 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1196325014818 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1196325014819 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1196325014820 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1196325014821 GatB domain; Region: GatB_Yqey; smart00845 1196325014822 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1196325014823 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1196325014824 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1196325014825 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1196325014826 Surface antigen; Region: Bac_surface_Ag; pfam01103 1196325014827 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1196325014828 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1196325014829 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1196325014830 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 1196325014831 trimer interface [polypeptide binding]; other site 1196325014832 active site 1196325014833 UDP-GlcNAc binding site [chemical binding]; other site 1196325014834 lipid binding site [chemical binding]; lipid-binding site 1196325014835 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 1196325014836 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1196325014837 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 1196325014838 active site 1196325014839 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1196325014840 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1196325014841 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1196325014842 RNA/DNA hybrid binding site [nucleotide binding]; other site 1196325014843 active site 1196325014844 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1196325014845 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1196325014846 putative active site [active] 1196325014847 putative PHP Thumb interface [polypeptide binding]; other site 1196325014848 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 1196325014849 generic binding surface II; other site 1196325014850 generic binding surface I; other site 1196325014851 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1196325014852 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1196325014853 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 1196325014854 Ligand Binding Site [chemical binding]; other site 1196325014855 TilS substrate binding domain; Region: TilS; pfam09179 1196325014856 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1196325014857 CTP synthetase; Validated; Region: pyrG; PRK05380 1196325014858 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 1196325014859 Catalytic site [active] 1196325014860 active site 1196325014861 UTP binding site [chemical binding]; other site 1196325014862 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1196325014863 active site 1196325014864 putative oxyanion hole; other site 1196325014865 catalytic triad [active] 1196325014866 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1196325014867 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1196325014868 enolase; Provisional; Region: eno; PRK00077 1196325014869 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 1196325014870 dimer interface [polypeptide binding]; other site 1196325014871 metal binding site [ion binding]; metal-binding site 1196325014872 substrate binding pocket [chemical binding]; other site 1196325014873 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1196325014874 Septum formation initiator; Region: DivIC; cl17659 1196325014875 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1196325014876 substrate binding site; other site 1196325014877 dimer interface; other site 1196325014878 LysR family transcriptional regulator; Provisional; Region: PRK14997 1196325014879 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325014880 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 1196325014881 putative effector binding pocket; other site 1196325014882 putative dimerization interface [polypeptide binding]; other site 1196325014883 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1196325014884 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1196325014885 substrate binding site [chemical binding]; other site 1196325014886 catalytic Zn binding site [ion binding]; other site 1196325014887 NAD binding site [chemical binding]; other site 1196325014888 structural Zn binding site [ion binding]; other site 1196325014889 dimer interface [polypeptide binding]; other site 1196325014890 S-formylglutathione hydrolase; Region: PLN02442 1196325014891 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1196325014892 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 1196325014893 homotrimer interaction site [polypeptide binding]; other site 1196325014894 zinc binding site [ion binding]; other site 1196325014895 CDP-binding sites; other site 1196325014896 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1196325014897 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1196325014898 Permutation of conserved domain; other site 1196325014899 active site 1196325014900 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1196325014901 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1196325014902 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1196325014903 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 1196325014904 S-adenosylmethionine binding site [chemical binding]; other site 1196325014905 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1196325014906 Peptidase family M23; Region: Peptidase_M23; pfam01551 1196325014907 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1196325014908 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1196325014909 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325014910 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1196325014911 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 1196325014912 DNA binding residues [nucleotide binding] 1196325014913 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1196325014914 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1196325014915 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1196325014916 MutS domain I; Region: MutS_I; pfam01624 1196325014917 MutS domain II; Region: MutS_II; pfam05188 1196325014918 MutS domain III; Region: MutS_III; pfam05192 1196325014919 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1196325014920 Walker A/P-loop; other site 1196325014921 ATP binding site [chemical binding]; other site 1196325014922 Q-loop/lid; other site 1196325014923 ABC transporter signature motif; other site 1196325014924 Walker B; other site 1196325014925 D-loop; other site 1196325014926 H-loop/switch region; other site 1196325014927 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1196325014928 recombinase A; Provisional; Region: recA; PRK09354 1196325014929 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 1196325014930 hexamer interface [polypeptide binding]; other site 1196325014931 Walker A motif; other site 1196325014932 ATP binding site [chemical binding]; other site 1196325014933 Walker B motif; other site 1196325014934 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1196325014935 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1196325014936 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 1196325014937 Uncharacterized conserved protein [Function unknown]; Region: COG3148 1196325014938 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196325014939 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 1196325014940 active site 1196325014941 phosphorylation site [posttranslational modification] 1196325014942 intermolecular recognition site; other site 1196325014943 dimerization interface [polypeptide binding]; other site 1196325014944 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 1196325014945 DNA binding residues [nucleotide binding] 1196325014946 dimerization interface [polypeptide binding]; other site 1196325014947 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1196325014948 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325014949 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325014950 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 1196325014951 putative dimerization interface [polypeptide binding]; other site 1196325014952 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1196325014953 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 1196325014954 FAD binding pocket [chemical binding]; other site 1196325014955 FAD binding motif [chemical binding]; other site 1196325014956 phosphate binding motif [ion binding]; other site 1196325014957 beta-alpha-beta structure motif; other site 1196325014958 NAD binding pocket [chemical binding]; other site 1196325014959 hypothetical protein; Provisional; Region: PRK04860 1196325014960 SprT homologues; Region: SprT; cl01182 1196325014961 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1196325014962 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1196325014963 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 1196325014964 Ligand Binding Site [chemical binding]; other site 1196325014965 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 1196325014966 Predicted membrane protein [Function unknown]; Region: COG3308 1196325014967 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1196325014968 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1196325014969 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 1196325014970 ArsC family; Region: ArsC; pfam03960 1196325014971 catalytic residues [active] 1196325014972 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 1196325014973 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1196325014974 catalytic residues [active] 1196325014975 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 1196325014976 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1196325014977 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1196325014978 putative NAD binding site [chemical binding]; other site 1196325014979 putative ligand binding site [chemical binding]; other site 1196325014980 catalytic site [active] 1196325014981 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196325014982 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 1196325014983 C-terminal domain interface [polypeptide binding]; other site 1196325014984 GSH binding site (G-site) [chemical binding]; other site 1196325014985 dimer interface [polypeptide binding]; other site 1196325014986 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1196325014987 dimer interface [polypeptide binding]; other site 1196325014988 N-terminal domain interface [polypeptide binding]; other site 1196325014989 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 1196325014990 CoenzymeA binding site [chemical binding]; other site 1196325014991 subunit interaction site [polypeptide binding]; other site 1196325014992 PHB binding site; other site 1196325014993 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1196325014994 Spore germination protein; Region: Spore_permease; cl17796 1196325014995 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1196325014996 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325014997 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 1196325014998 dimerization interface [polypeptide binding]; other site 1196325014999 substrate binding pocket [chemical binding]; other site 1196325015000 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1196325015001 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 1196325015002 inhibitor-cofactor binding pocket; inhibition site 1196325015003 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325015004 catalytic residue [active] 1196325015005 elongation factor G; Reviewed; Region: PRK00007 1196325015006 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1196325015007 G1 box; other site 1196325015008 putative GEF interaction site [polypeptide binding]; other site 1196325015009 GTP/Mg2+ binding site [chemical binding]; other site 1196325015010 Switch I region; other site 1196325015011 G2 box; other site 1196325015012 G3 box; other site 1196325015013 Switch II region; other site 1196325015014 G4 box; other site 1196325015015 G5 box; other site 1196325015016 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 1196325015017 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 1196325015018 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 1196325015019 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1196325015020 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1196325015021 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1196325015022 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 1196325015023 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 1196325015024 active site 1196325015025 catalytic residues [active] 1196325015026 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1196325015027 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1196325015028 isocitrate lyase; Provisional; Region: PRK15063 1196325015029 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 1196325015030 tetramer interface [polypeptide binding]; other site 1196325015031 active site 1196325015032 Mg2+/Mn2+ binding site [ion binding]; other site 1196325015033 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196325015034 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325015035 WHG domain; Region: WHG; pfam13305 1196325015036 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1196325015037 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 1196325015038 FeS/SAM binding site; other site 1196325015039 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1196325015040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 1196325015041 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1196325015042 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1196325015043 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 1196325015044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325015045 homodimer interface [polypeptide binding]; other site 1196325015046 catalytic residue [active] 1196325015047 excinuclease ABC subunit B; Provisional; Region: PRK05298 1196325015048 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 1196325015049 ATP binding site [chemical binding]; other site 1196325015050 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 1196325015051 nucleotide binding region [chemical binding]; other site 1196325015052 ATP-binding site [chemical binding]; other site 1196325015053 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1196325015054 UvrB/uvrC motif; Region: UVR; pfam02151 1196325015055 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1196325015056 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 1196325015057 putative substrate translocation pore; other site 1196325015058 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 1196325015059 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1196325015060 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325015061 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 1196325015062 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325015063 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1196325015064 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1196325015065 active site 1196325015066 HIGH motif; other site 1196325015067 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1196325015068 active site 1196325015069 KMSKS motif; other site 1196325015070 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 1196325015071 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1196325015072 Peptidase family M48; Region: Peptidase_M48; cl12018 1196325015073 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 1196325015074 CPxP motif; other site 1196325015075 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1196325015076 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1196325015077 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1196325015078 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 1196325015079 catalytic triad [active] 1196325015080 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1196325015081 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 1196325015082 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1196325015083 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1196325015084 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1196325015085 dimer interface [polypeptide binding]; other site 1196325015086 active site 1196325015087 catalytic residue [active] 1196325015088 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1196325015089 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1196325015090 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1196325015091 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1196325015092 ATP binding site [chemical binding]; other site 1196325015093 active site 1196325015094 substrate binding site [chemical binding]; other site 1196325015095 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1196325015096 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1196325015097 catalytic residues [active] 1196325015098 catalytic nucleophile [active] 1196325015099 Presynaptic Site I dimer interface [polypeptide binding]; other site 1196325015100 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1196325015101 Synaptic Flat tetramer interface [polypeptide binding]; other site 1196325015102 Synaptic Site I dimer interface [polypeptide binding]; other site 1196325015103 DNA binding site [nucleotide binding] 1196325015104 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 1196325015105 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1196325015106 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 1196325015107 active site 1196325015108 DNA binding site [nucleotide binding] 1196325015109 Int/Topo IB signature motif; other site 1196325015110 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1196325015111 Bacterial SH3 domain; Region: SH3_3; pfam08239 1196325015112 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1196325015113 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 1196325015114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325015115 homodimer interface [polypeptide binding]; other site 1196325015116 catalytic residue [active] 1196325015117 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1196325015118 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 1196325015119 NAD binding site [chemical binding]; other site 1196325015120 dimerization interface [polypeptide binding]; other site 1196325015121 product binding site; other site 1196325015122 substrate binding site [chemical binding]; other site 1196325015123 zinc binding site [ion binding]; other site 1196325015124 catalytic residues [active] 1196325015125 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1196325015126 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1196325015127 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1196325015128 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 1196325015129 hinge; other site 1196325015130 active site 1196325015131 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1196325015132 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1196325015133 anti sigma factor interaction site; other site 1196325015134 regulatory phosphorylation site [posttranslational modification]; other site 1196325015135 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1196325015136 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1196325015137 mce related protein; Region: MCE; pfam02470 1196325015138 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1196325015139 Permease; Region: Permease; cl00510 1196325015140 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1196325015141 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1196325015142 Walker A/P-loop; other site 1196325015143 ATP binding site [chemical binding]; other site 1196325015144 Q-loop/lid; other site 1196325015145 ABC transporter signature motif; other site 1196325015146 Walker B; other site 1196325015147 D-loop; other site 1196325015148 H-loop/switch region; other site 1196325015149 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1196325015150 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 1196325015151 putative active site [active] 1196325015152 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 1196325015153 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 1196325015154 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1196325015155 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1196325015156 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1196325015157 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1196325015158 OstA-like protein; Region: OstA; pfam03968 1196325015159 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1196325015160 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1196325015161 Walker A/P-loop; other site 1196325015162 ATP binding site [chemical binding]; other site 1196325015163 Q-loop/lid; other site 1196325015164 ABC transporter signature motif; other site 1196325015165 Walker B; other site 1196325015166 D-loop; other site 1196325015167 H-loop/switch region; other site 1196325015168 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1196325015169 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1196325015170 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1196325015171 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1196325015172 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 1196325015173 30S subunit binding site; other site 1196325015174 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 1196325015175 active site 1196325015176 phosphorylation site [posttranslational modification] 1196325015177 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1196325015178 AAA domain; Region: AAA_18; pfam13238 1196325015179 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 1196325015180 dimerization domain swap beta strand [polypeptide binding]; other site 1196325015181 regulatory protein interface [polypeptide binding]; other site 1196325015182 active site 1196325015183 regulatory phosphorylation site [posttranslational modification]; other site 1196325015184 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1196325015185 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1196325015186 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1196325015187 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1196325015188 Protein of unknown function (DUF2753); Region: DUF2753; pfam10952 1196325015189 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1196325015190 Class II fumarases; Region: Fumarase_classII; cd01362 1196325015191 active site 1196325015192 tetramer interface [polypeptide binding]; other site 1196325015193 peptidase PmbA; Provisional; Region: PRK11040 1196325015194 hypothetical protein; Provisional; Region: PRK05255 1196325015195 protease TldD; Provisional; Region: tldD; PRK10735 1196325015196 nitrilase; Region: PLN02798 1196325015197 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1196325015198 putative active site [active] 1196325015199 catalytic triad [active] 1196325015200 dimer interface [polypeptide binding]; other site 1196325015201 TIGR02099 family protein; Region: TIGR02099 1196325015202 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1196325015203 ribonuclease G; Provisional; Region: PRK11712 1196325015204 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 1196325015205 homodimer interface [polypeptide binding]; other site 1196325015206 oligonucleotide binding site [chemical binding]; other site 1196325015207 Maf-like protein; Region: Maf; pfam02545 1196325015208 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 1196325015209 active site 1196325015210 dimer interface [polypeptide binding]; other site 1196325015211 rod shape-determining protein MreD; Region: MreD; cl01087 1196325015212 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1196325015213 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325015214 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325015215 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 1196325015216 dimerization interface [polypeptide binding]; other site 1196325015217 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1196325015218 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325015219 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325015220 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 1196325015221 putative effector binding pocket; other site 1196325015222 dimerization interface [polypeptide binding]; other site 1196325015223 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1196325015224 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 1196325015225 dimerization interface [polypeptide binding]; other site 1196325015226 putative Zn2+ binding site [ion binding]; other site 1196325015227 putative DNA binding site [nucleotide binding]; other site 1196325015228 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1196325015229 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1196325015230 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1196325015231 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325015232 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325015233 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1196325015234 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1196325015235 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 1196325015236 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1196325015237 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325015238 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 1196325015239 active site 1196325015240 phosphorylation site [posttranslational modification] 1196325015241 intermolecular recognition site; other site 1196325015242 dimerization interface [polypeptide binding]; other site 1196325015243 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 1196325015244 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1196325015245 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1196325015246 FlgN protein; Region: FlgN; pfam05130 1196325015247 Flagellar regulator YcgR; Region: YcgR; pfam07317 1196325015248 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1196325015249 PilZ domain; Region: PilZ; pfam07238 1196325015250 putative MFS family transporter protein; Provisional; Region: PRK03633 1196325015251 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 1196325015252 putative substrate translocation pore; other site 1196325015253 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1196325015254 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1196325015255 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196325015256 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1196325015257 putative DNA binding site [nucleotide binding]; other site 1196325015258 putative Zn2+ binding site [ion binding]; other site 1196325015259 AsnC family; Region: AsnC_trans_reg; pfam01037 1196325015260 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 1196325015261 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1196325015262 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 1196325015263 tetramer interface [polypeptide binding]; other site 1196325015264 TPP-binding site [chemical binding]; other site 1196325015265 heterodimer interface [polypeptide binding]; other site 1196325015266 phosphorylation loop region [posttranslational modification] 1196325015267 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1196325015268 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 1196325015269 alpha subunit interface [polypeptide binding]; other site 1196325015270 TPP binding site [chemical binding]; other site 1196325015271 heterodimer interface [polypeptide binding]; other site 1196325015272 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1196325015273 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1196325015274 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 1196325015275 E3 interaction surface; other site 1196325015276 lipoyl attachment site [posttranslational modification]; other site 1196325015277 e3 binding domain; Region: E3_binding; pfam02817 1196325015278 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1196325015279 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 1196325015280 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196325015281 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1196325015282 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 1196325015283 PAS fold; Region: PAS_3; pfam08447 1196325015284 putative active site [active] 1196325015285 heme pocket [chemical binding]; other site 1196325015286 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325015287 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325015288 metal binding site [ion binding]; metal-binding site 1196325015289 active site 1196325015290 I-site; other site 1196325015291 AAA domain; Region: AAA_32; pfam13654 1196325015292 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1196325015293 Spore germination protein; Region: Spore_permease; cl17796 1196325015294 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 1196325015295 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1196325015296 active site 1196325015297 Arc-like DNA binding domain; Region: Arc; pfam03869 1196325015298 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1196325015299 MgtE intracellular N domain; Region: MgtE_N; smart00924 1196325015300 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 1196325015301 Divalent cation transporter; Region: MgtE; pfam01769 1196325015302 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1196325015303 hypothetical protein; Provisional; Region: PRK11505 1196325015304 psiF repeat; Region: PsiF_repeat; pfam07769 1196325015305 psiF repeat; Region: PsiF_repeat; pfam07769 1196325015306 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1196325015307 Helix-turn-helix domain; Region: HTH_18; pfam12833 1196325015308 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325015309 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1196325015310 EamA-like transporter family; Region: EamA; pfam00892 1196325015311 EamA-like transporter family; Region: EamA; pfam00892 1196325015312 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1196325015313 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 1196325015314 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1196325015315 Ferritin-like domain; Region: Ferritin; pfam00210 1196325015316 dinuclear metal binding motif [ion binding]; other site 1196325015317 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1196325015318 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1196325015319 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1196325015320 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 1196325015321 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1196325015322 folate binding site [chemical binding]; other site 1196325015323 NADP+ binding site [chemical binding]; other site 1196325015324 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 1196325015325 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1196325015326 G1 box; other site 1196325015327 GTP/Mg2+ binding site [chemical binding]; other site 1196325015328 G2 box; other site 1196325015329 Switch I region; other site 1196325015330 G3 box; other site 1196325015331 Switch II region; other site 1196325015332 G4 box; other site 1196325015333 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 1196325015334 G5 box; other site 1196325015335 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1196325015336 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1196325015337 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1196325015338 hypothetical protein; Provisional; Region: PRK06847 1196325015339 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1196325015340 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196325015341 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1196325015342 Isochorismatase family; Region: Isochorismatase; pfam00857 1196325015343 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 1196325015344 catalytic triad [active] 1196325015345 substrate binding site [chemical binding]; other site 1196325015346 domain interfaces; other site 1196325015347 conserved cis-peptide bond; other site 1196325015348 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1196325015349 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 1196325015350 putative substrate translocation pore; other site 1196325015351 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325015352 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325015353 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325015354 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 1196325015355 putative effector binding pocket; other site 1196325015356 dimerization interface [polypeptide binding]; other site 1196325015357 hypothetical protein; Provisional; Region: PRK10621 1196325015358 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1196325015359 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325015360 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325015361 metal binding site [ion binding]; metal-binding site 1196325015362 active site 1196325015363 I-site; other site 1196325015364 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1196325015365 transmembrane helices; other site 1196325015366 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1196325015367 TrkA-C domain; Region: TrkA_C; pfam02080 1196325015368 TrkA-C domain; Region: TrkA_C; pfam02080 1196325015369 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1196325015370 transmembrane helices; other site 1196325015371 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1196325015372 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 1196325015373 N-terminal plug; other site 1196325015374 ligand-binding site [chemical binding]; other site 1196325015375 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1196325015376 FecR protein; Region: FecR; pfam04773 1196325015377 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196325015378 RNA polymerase sigma factor; Reviewed; Region: PRK12527 1196325015379 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 1196325015380 DNA binding residues [nucleotide binding] 1196325015381 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1196325015382 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1196325015383 dimer interface [polypeptide binding]; other site 1196325015384 active site 1196325015385 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1196325015386 catalytic residues [active] 1196325015387 substrate binding site [chemical binding]; other site 1196325015388 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1196325015389 Sel1 repeat; Region: Sel1; cl02723 1196325015390 Sel1-like repeats; Region: SEL1; smart00671 1196325015391 Sel1 repeat; Region: Sel1; cl02723 1196325015392 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1196325015393 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1196325015394 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 1196325015395 N-terminal plug; other site 1196325015396 ligand-binding site [chemical binding]; other site 1196325015397 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1196325015398 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1196325015399 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1196325015400 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1196325015401 Flavodoxin; Region: Flavodoxin_1; pfam00258 1196325015402 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 1196325015403 FAD binding pocket [chemical binding]; other site 1196325015404 FAD binding motif [chemical binding]; other site 1196325015405 catalytic residues [active] 1196325015406 NAD binding pocket [chemical binding]; other site 1196325015407 phosphate binding motif [ion binding]; other site 1196325015408 beta-alpha-beta structure motif; other site 1196325015409 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1196325015410 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1196325015411 Surface antigen; Region: Bac_surface_Ag; pfam01103 1196325015412 DNA-specific endonuclease I; Provisional; Region: PRK15137 1196325015413 Endonuclease I; Region: Endonuclease_1; pfam04231 1196325015414 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 1196325015415 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1196325015416 dimerization interface [polypeptide binding]; other site 1196325015417 ligand binding site [chemical binding]; other site 1196325015418 NADP binding site [chemical binding]; other site 1196325015419 catalytic site [active] 1196325015420 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 1196325015421 D-galactonate transporter; Region: 2A0114; TIGR00893 1196325015422 putative substrate translocation pore; other site 1196325015423 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1196325015424 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 1196325015425 substrate binding site [chemical binding]; other site 1196325015426 ATP binding site [chemical binding]; other site 1196325015427 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1196325015428 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1196325015429 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1196325015430 DNA binding site [nucleotide binding] 1196325015431 domain linker motif; other site 1196325015432 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1196325015433 putative dimerization interface [polypeptide binding]; other site 1196325015434 putative ligand binding site [chemical binding]; other site 1196325015435 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1196325015436 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1196325015437 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1196325015438 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1196325015439 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1196325015440 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1196325015441 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 1196325015442 catalytic core [active] 1196325015443 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 1196325015444 active site 1196325015445 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1196325015446 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1196325015447 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1196325015448 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1196325015449 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1196325015450 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1196325015451 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1196325015452 aconitate hydratase; Validated; Region: PRK09277 1196325015453 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1196325015454 substrate binding site [chemical binding]; other site 1196325015455 ligand binding site [chemical binding]; other site 1196325015456 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 1196325015457 substrate binding site [chemical binding]; other site 1196325015458 PAS domain; Region: PAS_9; pfam13426 1196325015459 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 1196325015460 putative active site [active] 1196325015461 heme pocket [chemical binding]; other site 1196325015462 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325015463 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325015464 dimer interface [polypeptide binding]; other site 1196325015465 putative CheW interface [polypeptide binding]; other site 1196325015466 Integrase core domain; Region: rve_3; pfam13683 1196325015467 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 1196325015468 GTP cyclohydrolase I; Provisional; Region: PLN03044 1196325015469 active site 1196325015470 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1196325015471 Smr domain; Region: Smr; pfam01713 1196325015472 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 1196325015473 Isochorismatase family; Region: Isochorismatase; pfam00857 1196325015474 catalytic triad [active] 1196325015475 conserved cis-peptide bond; other site 1196325015476 HemK family putative methylases; Region: hemK_fam; TIGR00536 1196325015477 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 1196325015478 S-adenosylmethionine binding site [chemical binding]; other site 1196325015479 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1196325015480 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1196325015481 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1196325015482 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 1196325015483 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1196325015484 DsbD alpha interface [polypeptide binding]; other site 1196325015485 catalytic residues [active] 1196325015486 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1196325015487 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 1196325015488 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1196325015489 catalytic residues [active] 1196325015490 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 1196325015491 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 1196325015492 dimerization domain [polypeptide binding]; other site 1196325015493 dimer interface [polypeptide binding]; other site 1196325015494 catalytic residues [active] 1196325015495 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325015496 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1196325015497 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 1196325015498 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 1196325015499 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1196325015500 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 1196325015501 trimer interface [polypeptide binding]; other site 1196325015502 putative metal binding site [ion binding]; other site 1196325015503 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1196325015504 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1196325015505 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1196325015506 active site 1196325015507 catalytic residues [active] 1196325015508 metal binding site [ion binding]; metal-binding site 1196325015509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325015510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325015511 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 1196325015512 putative dimerization interface [polypeptide binding]; other site 1196325015513 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1196325015514 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1196325015515 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1196325015516 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1196325015517 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1196325015518 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1196325015519 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 1196325015520 Pirin-related protein [General function prediction only]; Region: COG1741 1196325015521 Pirin; Region: Pirin; pfam02678 1196325015522 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1196325015523 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1196325015524 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1196325015525 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196325015526 putative acetyltransferase; Provisional; Region: PRK03624 1196325015527 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325015528 Coenzyme A binding pocket [chemical binding]; other site 1196325015529 Probable cobalt transporter subunit (CbtB); Region: CbtB; pfam09489 1196325015530 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 1196325015531 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1196325015532 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1196325015533 active site 1196325015534 SAM binding site [chemical binding]; other site 1196325015535 homodimer interface [polypeptide binding]; other site 1196325015536 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196325015537 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 1196325015538 active site 1196325015539 phosphorylation site [posttranslational modification] 1196325015540 intermolecular recognition site; other site 1196325015541 dimerization interface [polypeptide binding]; other site 1196325015542 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 1196325015543 DNA binding residues [nucleotide binding] 1196325015544 dimerization interface [polypeptide binding]; other site 1196325015545 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 1196325015546 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1196325015547 substrate binding pocket [chemical binding]; other site 1196325015548 membrane-bound complex binding site; other site 1196325015549 hinge residues; other site 1196325015550 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 1196325015551 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325015552 substrate binding pocket [chemical binding]; other site 1196325015553 membrane-bound complex binding site; other site 1196325015554 hinge residues; other site 1196325015555 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325015556 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 1196325015557 dimer interface [polypeptide binding]; other site 1196325015558 phosphorylation site [posttranslational modification] 1196325015559 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 1196325015560 ATP binding site [chemical binding]; other site 1196325015561 Mg2+ binding site [ion binding]; other site 1196325015562 G-X-G motif; other site 1196325015563 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325015564 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 1196325015565 active site 1196325015566 phosphorylation site [posttranslational modification] 1196325015567 intermolecular recognition site; other site 1196325015568 dimerization interface [polypeptide binding]; other site 1196325015569 Hpt domain; Region: Hpt; pfam01627 1196325015570 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 1196325015571 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1196325015572 putative active site [active] 1196325015573 heme pocket [chemical binding]; other site 1196325015574 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 1196325015575 putative active site [active] 1196325015576 heme pocket [chemical binding]; other site 1196325015577 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325015578 dimer interface [polypeptide binding]; other site 1196325015579 putative CheW interface [polypeptide binding]; other site 1196325015580 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1196325015581 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1196325015582 putative ligand binding site [chemical binding]; other site 1196325015583 putative dimerization interface [polypeptide binding]; other site 1196325015584 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 1196325015585 ATP-binding site [chemical binding]; other site 1196325015586 Gluconate-6-phosphate binding site [chemical binding]; other site 1196325015587 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1196325015588 GntP family permease; Region: GntP_permease; pfam02447 1196325015589 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1196325015590 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 1196325015591 active site 1196325015592 phosphorylation site [posttranslational modification] 1196325015593 intermolecular recognition site; other site 1196325015594 dimerization interface [polypeptide binding]; other site 1196325015595 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 1196325015596 Walker A motif; other site 1196325015597 ATP binding site [chemical binding]; other site 1196325015598 Walker B motif; other site 1196325015599 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196325015600 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325015601 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 1196325015602 dimer interface [polypeptide binding]; other site 1196325015603 phosphorylation site [posttranslational modification] 1196325015604 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 1196325015605 ATP binding site [chemical binding]; other site 1196325015606 Mg2+ binding site [ion binding]; other site 1196325015607 G-X-G motif; other site 1196325015608 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325015609 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 1196325015610 dimer interface [polypeptide binding]; other site 1196325015611 phosphorylation site [posttranslational modification] 1196325015612 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 1196325015613 ATP binding site [chemical binding]; other site 1196325015614 Mg2+ binding site [ion binding]; other site 1196325015615 G-X-G motif; other site 1196325015616 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1196325015617 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 1196325015618 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1196325015619 catalytic residue [active] 1196325015620 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1196325015621 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1196325015622 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1196325015623 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1196325015624 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1196325015625 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1196325015626 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325015627 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325015628 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1196325015629 Outer membrane efflux protein; Region: OEP; pfam02321 1196325015630 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 1196325015631 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 1196325015632 active site 1196325015633 catalytic triad [active] 1196325015634 oxyanion hole [active] 1196325015635 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1196325015636 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1196325015637 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1196325015638 glutamine binding [chemical binding]; other site 1196325015639 catalytic triad [active] 1196325015640 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1196325015641 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1196325015642 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1196325015643 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 1196325015644 active site 1196325015645 ribulose/triose binding site [chemical binding]; other site 1196325015646 phosphate binding site [ion binding]; other site 1196325015647 substrate (anthranilate) binding pocket [chemical binding]; other site 1196325015648 product (indole) binding pocket [chemical binding]; other site 1196325015649 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1196325015650 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1196325015651 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 1196325015652 ligand binding site [chemical binding]; other site 1196325015653 flexible hinge region; other site 1196325015654 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 1196325015655 putative switch regulator; other site 1196325015656 non-specific DNA interactions [nucleotide binding]; other site 1196325015657 DNA binding site [nucleotide binding] 1196325015658 sequence specific DNA binding site [nucleotide binding]; other site 1196325015659 putative cAMP binding site [chemical binding]; other site 1196325015660 OsmC-like protein; Region: OsmC; cl00767 1196325015661 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1196325015662 diiron binding motif [ion binding]; other site 1196325015663 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 1196325015664 nucleotide binding site/active site [active] 1196325015665 HIT family signature motif; other site 1196325015666 catalytic residue [active] 1196325015667 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1196325015668 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325015669 NAD(P) binding site [chemical binding]; other site 1196325015670 active site 1196325015671 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1196325015672 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 1196325015673 FMN binding site [chemical binding]; other site 1196325015674 substrate binding site [chemical binding]; other site 1196325015675 putative catalytic residue [active] 1196325015676 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1196325015677 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1196325015678 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1196325015679 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1196325015680 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1196325015681 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1196325015682 Peptidase family M23; Region: Peptidase_M23; pfam01551 1196325015683 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1196325015684 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1196325015685 active site 1196325015686 HIGH motif; other site 1196325015687 dimer interface [polypeptide binding]; other site 1196325015688 KMSKS motif; other site 1196325015689 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1196325015690 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 1196325015691 catalytic residue [active] 1196325015692 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 1196325015693 catalytic residues [active] 1196325015694 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196325015695 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196325015696 peroxiredoxin; Region: AhpC; TIGR03137 1196325015697 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 1196325015698 dimer interface [polypeptide binding]; other site 1196325015699 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1196325015700 catalytic triad [active] 1196325015701 peroxidatic and resolving cysteines [active] 1196325015702 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1196325015703 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196325015704 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 1196325015705 FAD binding site [chemical binding]; other site 1196325015706 substrate binding site [chemical binding]; other site 1196325015707 catalytic base [active] 1196325015708 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1196325015709 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325015710 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 1196325015711 substrate binding pocket [chemical binding]; other site 1196325015712 dimerization interface [polypeptide binding]; other site 1196325015713 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 1196325015714 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1196325015715 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196325015716 catalytic residue [active] 1196325015717 RES domain; Region: RES; pfam08808 1196325015718 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 1196325015719 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 1196325015720 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 1196325015721 FMN binding site [chemical binding]; other site 1196325015722 dimer interface [polypeptide binding]; other site 1196325015723 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325015724 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325015725 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 1196325015726 putative effector binding pocket; other site 1196325015727 dimerization interface [polypeptide binding]; other site 1196325015728 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1196325015729 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196325015730 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325015731 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325015732 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196325015733 putative arabinose transporter; Provisional; Region: PRK03545 1196325015734 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 1196325015735 putative substrate translocation pore; other site 1196325015736 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1196325015737 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1196325015738 putative NAD(P) binding site [chemical binding]; other site 1196325015739 putative substrate binding site [chemical binding]; other site 1196325015740 catalytic Zn binding site [ion binding]; other site 1196325015741 structural Zn binding site [ion binding]; other site 1196325015742 dimer interface [polypeptide binding]; other site 1196325015743 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1196325015744 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196325015745 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325015746 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325015747 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1196325015748 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1196325015749 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1196325015750 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1196325015751 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1196325015752 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1196325015753 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325015754 Coenzyme A binding pocket [chemical binding]; other site 1196325015755 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1196325015756 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 1196325015757 N-terminal plug; other site 1196325015758 ligand-binding site [chemical binding]; other site 1196325015759 Predicted membrane protein [Function unknown]; Region: COG3503 1196325015760 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 1196325015761 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1196325015762 putative ligand binding residues [chemical binding]; other site 1196325015763 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 1196325015764 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1196325015765 dimer interface [polypeptide binding]; other site 1196325015766 putative PBP binding regions; other site 1196325015767 ABC-ATPase subunit interface; other site 1196325015768 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1196325015769 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1196325015770 Walker A/P-loop; other site 1196325015771 ATP binding site [chemical binding]; other site 1196325015772 Q-loop/lid; other site 1196325015773 ABC transporter signature motif; other site 1196325015774 Walker B; other site 1196325015775 D-loop; other site 1196325015776 H-loop/switch region; other site 1196325015777 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1196325015778 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1196325015779 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1196325015780 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325015781 Coenzyme A binding pocket [chemical binding]; other site 1196325015782 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1196325015783 Cache domain; Region: Cache_1; pfam02743 1196325015784 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325015785 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325015786 metal binding site [ion binding]; metal-binding site 1196325015787 active site 1196325015788 I-site; other site 1196325015789 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1196325015790 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 1196325015791 P-loop; other site 1196325015792 Magnesium ion binding site [ion binding]; other site 1196325015793 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 1196325015794 Magnesium ion binding site [ion binding]; other site 1196325015795 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 1196325015796 metabolite-proton symporter; Region: 2A0106; TIGR00883 1196325015797 putative substrate translocation pore; other site 1196325015798 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1196325015799 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1196325015800 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325015801 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1196325015802 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 1196325015803 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1196325015804 trimer interface [polypeptide binding]; other site 1196325015805 active site 1196325015806 dimer interface [polypeptide binding]; other site 1196325015807 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 1196325015808 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1196325015809 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1196325015810 shikimate binding site; other site 1196325015811 NAD(P) binding site [chemical binding]; other site 1196325015812 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 1196325015813 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1196325015814 catalytic residues [active] 1196325015815 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1196325015816 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1196325015817 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 1196325015818 active site 1196325015819 phosphorylation site [posttranslational modification] 1196325015820 intermolecular recognition site; other site 1196325015821 dimerization interface [polypeptide binding]; other site 1196325015822 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 1196325015823 DNA binding site [nucleotide binding] 1196325015824 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 1196325015825 dimer interface [polypeptide binding]; other site 1196325015826 phosphorylation site [posttranslational modification] 1196325015827 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 1196325015828 ATP binding site [chemical binding]; other site 1196325015829 Mg2+ binding site [ion binding]; other site 1196325015830 G-X-G motif; other site 1196325015831 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 1196325015832 Predicted membrane protein [Function unknown]; Region: COG2259 1196325015833 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 1196325015834 hypothetical protein; Provisional; Region: PRK05409 1196325015835 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 1196325015836 EF-hand domain pair; Region: EF_hand_5; pfam13499 1196325015837 Ca2+ binding site [ion binding]; other site 1196325015838 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 1196325015839 Leucine rich repeat; Region: LRR_8; pfam13855 1196325015840 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 1196325015841 Leucine rich repeat; Region: LRR_8; pfam13855 1196325015842 Substrate binding site [chemical binding]; other site 1196325015843 DNA polymerase II; Reviewed; Region: PRK05762 1196325015844 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1196325015845 active site 1196325015846 catalytic site [active] 1196325015847 substrate binding site [chemical binding]; other site 1196325015848 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 1196325015849 active site 1196325015850 metal-binding site 1196325015851 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1196325015852 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 1196325015853 putative substrate translocation pore; other site 1196325015854 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325015855 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325015856 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 1196325015857 putative effector binding pocket; other site 1196325015858 putative dimerization interface [polypeptide binding]; other site 1196325015859 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325015860 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325015861 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 1196325015862 dimerization interface [polypeptide binding]; other site 1196325015863 YqcI/YcgG family; Region: YqcI_YcgG; pfam08892 1196325015864 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196325015865 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1196325015866 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1196325015867 Predicted membrane protein [Function unknown]; Region: COG4392 1196325015868 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1196325015869 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196325015870 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325015871 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325015872 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1196325015873 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1196325015874 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 1196325015875 Cu(I) binding site [ion binding]; other site 1196325015876 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1196325015877 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 1196325015878 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1196325015879 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1196325015880 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 1196325015881 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1196325015882 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1196325015883 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 1196325015884 substrate binding pocket [chemical binding]; other site 1196325015885 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 1196325015886 B12 binding site [chemical binding]; other site 1196325015887 cobalt ligand [ion binding]; other site 1196325015888 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1196325015889 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1196325015890 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_13; cd06324 1196325015891 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1196325015892 putative ligand binding site [chemical binding]; other site 1196325015893 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1196325015894 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1196325015895 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1196325015896 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 1196325015897 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 1196325015898 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 1196325015899 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1196325015900 active site 1196325015901 catalytic tetrad [active] 1196325015902 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 1196325015903 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196325015904 putative substrate translocation pore; other site 1196325015905 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 1196325015906 putative substrate translocation pore; other site 1196325015907 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196325015908 Cupin domain; Region: Cupin_2; cl17218 1196325015909 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325015910 Helix-turn-helix domain; Region: HTH_18; pfam12833 1196325015911 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325015912 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1196325015913 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1196325015914 active site 1196325015915 Zn binding site [ion binding]; other site 1196325015916 Spore Coat Protein U domain; Region: SCPU; pfam05229 1196325015917 Spore Coat Protein U domain; Region: SCPU; pfam05229 1196325015918 PapC N-terminal domain; Region: PapC_N; pfam13954 1196325015919 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1196325015920 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1196325015921 PapC C-terminal domain; Region: PapC_C; pfam13953 1196325015922 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1196325015923 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1196325015924 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1196325015925 Spore Coat Protein U domain; Region: SCPU; pfam05229 1196325015926 Spore Coat Protein U domain; Region: SCPU; pfam05229 1196325015927 Spore Coat Protein U domain; Region: SCPU; pfam05229 1196325015928 Spore Coat Protein U domain; Region: SCPU; pfam05229 1196325015929 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1196325015930 GAF domain; Region: GAF; pfam01590 1196325015931 Phytochrome region; Region: PHY; pfam00360 1196325015932 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 1196325015933 dimer interface [polypeptide binding]; other site 1196325015934 phosphorylation site [posttranslational modification] 1196325015935 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 1196325015936 ATP binding site [chemical binding]; other site 1196325015937 Mg2+ binding site [ion binding]; other site 1196325015938 G-X-G motif; other site 1196325015939 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196325015940 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 1196325015941 active site 1196325015942 phosphorylation site [posttranslational modification] 1196325015943 intermolecular recognition site; other site 1196325015944 dimerization interface [polypeptide binding]; other site 1196325015945 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196325015946 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 1196325015947 active site 1196325015948 phosphorylation site [posttranslational modification] 1196325015949 intermolecular recognition site; other site 1196325015950 dimerization interface [polypeptide binding]; other site 1196325015951 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 1196325015952 PAS fold; Region: PAS_3; pfam08447 1196325015953 putative active site [active] 1196325015954 heme pocket [chemical binding]; other site 1196325015955 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 1196325015956 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1196325015957 putative active site [active] 1196325015958 heme pocket [chemical binding]; other site 1196325015959 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 1196325015960 dimer interface [polypeptide binding]; other site 1196325015961 phosphorylation site [posttranslational modification] 1196325015962 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 1196325015963 ATP binding site [chemical binding]; other site 1196325015964 Mg2+ binding site [ion binding]; other site 1196325015965 G-X-G motif; other site 1196325015966 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 1196325015967 Response regulator receiver domain; Region: Response_reg; pfam00072 1196325015968 intermolecular recognition site; other site 1196325015969 active site 1196325015970 dimerization interface [polypeptide binding]; other site 1196325015971 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 1196325015972 Predicted ATPase [General function prediction only]; Region: COG1485 1196325015973 Walker A motif; other site 1196325015974 ATP binding site [chemical binding]; other site 1196325015975 Walker B motif; other site 1196325015976 arginine finger; other site 1196325015977 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1196325015978 CoA binding site [chemical binding]; other site 1196325015979 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1196325015980 acyl-activating enzyme (AAE) consensus motif; other site 1196325015981 active site 1196325015982 AMP binding site [chemical binding]; other site 1196325015983 CoA binding site [chemical binding]; other site 1196325015984 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325015985 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325015986 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1196325015987 dimerization interface [polypeptide binding]; other site 1196325015988 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 1196325015989 HPP family; Region: HPP; pfam04982 1196325015990 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 1196325015991 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 1196325015992 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325015993 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 1196325015994 ATP binding site [chemical binding]; other site 1196325015995 Mg2+ binding site [ion binding]; other site 1196325015996 G-X-G motif; other site 1196325015997 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196325015998 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 1196325015999 active site 1196325016000 phosphorylation site [posttranslational modification] 1196325016001 intermolecular recognition site; other site 1196325016002 dimerization interface [polypeptide binding]; other site 1196325016003 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 1196325016004 DNA binding site [nucleotide binding] 1196325016005 Predicted membrane protein [Function unknown]; Region: COG3212 1196325016006 Predicted membrane protein [Function unknown]; Region: COG3212 1196325016007 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1196325016008 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1196325016009 active site 1196325016010 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1196325016011 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1196325016012 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 1196325016013 substrate binding site [chemical binding]; other site 1196325016014 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1196325016015 substrate binding site [chemical binding]; other site 1196325016016 ligand binding site [chemical binding]; other site 1196325016017 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1196325016018 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1196325016019 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1196325016020 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1196325016021 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1196325016022 substrate binding site [chemical binding]; other site 1196325016023 ligand binding site [chemical binding]; other site 1196325016024 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 1196325016025 substrate binding site [chemical binding]; other site 1196325016026 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1196325016027 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) catalyzes...; Region: Ec2MCS_like; cd06108 1196325016028 dimer interface [polypeptide binding]; other site 1196325016029 active site 1196325016030 citrylCoA binding site [chemical binding]; other site 1196325016031 oxalacetate/citrate binding site [chemical binding]; other site 1196325016032 coenzyme A binding site [chemical binding]; other site 1196325016033 catalytic triad [active] 1196325016034 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1196325016035 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 1196325016036 tetramer interface [polypeptide binding]; other site 1196325016037 active site 1196325016038 Mg2+/Mn2+ binding site [ion binding]; other site 1196325016039 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1196325016040 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325016041 DNA-binding site [nucleotide binding]; DNA binding site 1196325016042 FCD domain; Region: FCD; pfam07729 1196325016043 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1196325016044 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 1196325016045 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 1196325016046 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 1196325016047 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1196325016048 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1196325016049 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1196325016050 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1196325016051 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 1196325016052 Active Sites [active] 1196325016053 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1196325016054 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325016055 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1196325016056 substrate binding site [chemical binding]; other site 1196325016057 dimerization interface [polypeptide binding]; other site 1196325016058 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 1196325016059 Ligand Binding Site [chemical binding]; other site 1196325016060 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 1196325016061 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1196325016062 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1196325016063 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1196325016064 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1196325016065 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325016066 Coenzyme A binding pocket [chemical binding]; other site 1196325016067 L,D-transpeptidase; Provisional; Region: PRK10260 1196325016068 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1196325016069 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 1196325016070 active site 1196325016071 catalytic triad [active] 1196325016072 oxyanion hole [active] 1196325016073 switch loop; other site 1196325016074 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1196325016075 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1196325016076 Walker A/P-loop; other site 1196325016077 ATP binding site [chemical binding]; other site 1196325016078 Q-loop/lid; other site 1196325016079 ABC transporter signature motif; other site 1196325016080 Walker B; other site 1196325016081 D-loop; other site 1196325016082 H-loop/switch region; other site 1196325016083 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1196325016084 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1196325016085 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1196325016086 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1196325016087 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1196325016088 Predicted membrane protein [Function unknown]; Region: COG2259 1196325016089 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 1196325016090 substrate binding pocket [chemical binding]; other site 1196325016091 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1196325016092 membrane-bound complex binding site; other site 1196325016093 hinge residues; other site 1196325016094 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 1196325016095 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1196325016096 catalytic residue [active] 1196325016097 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1196325016098 active site 1196325016099 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 1196325016100 dimerization interface [polypeptide binding]; other site 1196325016101 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325016102 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325016103 dimer interface [polypeptide binding]; other site 1196325016104 putative CheW interface [polypeptide binding]; other site 1196325016105 Terminase small subunit; Region: Terminase_2; cl01513 1196325016106 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1196325016107 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1196325016108 active site 1196325016109 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 1196325016110 active site 2 [active] 1196325016111 active site 1 [active] 1196325016112 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 1196325016113 hypothetical protein; Provisional; Region: PRK10279 1196325016114 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1196325016115 active site 1196325016116 nucleophile elbow; other site 1196325016117 periplasmic folding chaperone; Provisional; Region: PRK10788 1196325016118 SurA N-terminal domain; Region: SurA_N_3; pfam13624 1196325016119 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1196325016120 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 1196325016121 IHF dimer interface [polypeptide binding]; other site 1196325016122 IHF - DNA interface [nucleotide binding]; other site 1196325016123 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1196325016124 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1196325016125 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 1196325016126 Walker A motif; other site 1196325016127 ATP binding site [chemical binding]; other site 1196325016128 Walker B motif; other site 1196325016129 arginine finger; other site 1196325016130 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1196325016131 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1196325016132 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1196325016133 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 1196325016134 Walker A motif; other site 1196325016135 ATP binding site [chemical binding]; other site 1196325016136 Walker B motif; other site 1196325016137 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1196325016138 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1196325016139 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1196325016140 oligomer interface [polypeptide binding]; other site 1196325016141 active site residues [active] 1196325016142 trigger factor; Provisional; Region: tig; PRK01490 1196325016143 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1196325016144 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1196325016145 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1196325016146 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1196325016147 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1196325016148 homodimer interface [polypeptide binding]; other site 1196325016149 NADP binding site [chemical binding]; other site 1196325016150 substrate binding site [chemical binding]; other site 1196325016151 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1196325016152 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 1196325016153 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1196325016154 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 1196325016155 dimer interface [polypeptide binding]; other site 1196325016156 conserved gate region; other site 1196325016157 putative PBP binding loops; other site 1196325016158 ABC-ATPase subunit interface; other site 1196325016159 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1196325016160 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 1196325016161 dimer interface [polypeptide binding]; other site 1196325016162 conserved gate region; other site 1196325016163 putative PBP binding loops; other site 1196325016164 ABC-ATPase subunit interface; other site 1196325016165 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1196325016166 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1196325016167 Walker A/P-loop; other site 1196325016168 ATP binding site [chemical binding]; other site 1196325016169 Q-loop/lid; other site 1196325016170 ABC transporter signature motif; other site 1196325016171 Walker B; other site 1196325016172 D-loop; other site 1196325016173 H-loop/switch region; other site 1196325016174 TOBE domain; Region: TOBE; pfam03459 1196325016175 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1196325016176 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1196325016177 Walker A/P-loop; other site 1196325016178 ATP binding site [chemical binding]; other site 1196325016179 Q-loop/lid; other site 1196325016180 ABC transporter signature motif; other site 1196325016181 Walker B; other site 1196325016182 D-loop; other site 1196325016183 H-loop/switch region; other site 1196325016184 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1196325016185 GAF domain; Region: GAF; pfam01590 1196325016186 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 1196325016187 Walker A motif; other site 1196325016188 ATP binding site [chemical binding]; other site 1196325016189 Walker B motif; other site 1196325016190 arginine finger; other site 1196325016191 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196325016192 PAS domain; Region: PAS_9; pfam13426 1196325016193 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 1196325016194 putative active site [active] 1196325016195 heme pocket [chemical binding]; other site 1196325016196 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325016197 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325016198 metal binding site [ion binding]; metal-binding site 1196325016199 active site 1196325016200 I-site; other site 1196325016201 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 1196325016202 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 1196325016203 PAS fold; Region: PAS_3; pfam08447 1196325016204 putative active site [active] 1196325016205 heme pocket [chemical binding]; other site 1196325016206 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325016207 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325016208 dimer interface [polypeptide binding]; other site 1196325016209 putative CheW interface [polypeptide binding]; other site 1196325016210 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1196325016211 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 1196325016212 non-specific DNA binding site [nucleotide binding]; other site 1196325016213 salt bridge; other site 1196325016214 sequence-specific DNA binding site [nucleotide binding]; other site 1196325016215 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 1196325016216 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1196325016217 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1196325016218 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325016219 DNA-binding site [nucleotide binding]; DNA binding site 1196325016220 FCD domain; Region: FCD; pfam07729 1196325016221 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1196325016222 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196325016223 DNA-binding site [nucleotide binding]; DNA binding site 1196325016224 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1196325016225 Predicted membrane protein [Function unknown]; Region: COG4125 1196325016226 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1196325016227 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1196325016228 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325016229 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325016230 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 1196325016231 dimerization interface [polypeptide binding]; other site 1196325016232 Cache domain; Region: Cache_1; pfam02743 1196325016233 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 1196325016234 dimerization interface [polypeptide binding]; other site 1196325016235 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325016236 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325016237 dimer interface [polypeptide binding]; other site 1196325016238 putative CheW interface [polypeptide binding]; other site 1196325016239 Uncharacterized membrane protein [Function unknown]; Region: COG3949 1196325016240 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 1196325016241 homotrimer interaction site [polypeptide binding]; other site 1196325016242 putative active site [active] 1196325016243 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1196325016244 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1196325016245 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1196325016246 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 1196325016247 non-specific DNA binding site [nucleotide binding]; other site 1196325016248 salt bridge; other site 1196325016249 sequence-specific DNA binding site [nucleotide binding]; other site 1196325016250 Cupin domain; Region: Cupin_2; pfam07883 1196325016251 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1196325016252 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 1196325016253 outer membrane receptor FepA; Provisional; Region: PRK13524 1196325016254 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 1196325016255 N-terminal plug; other site 1196325016256 ligand-binding site [chemical binding]; other site 1196325016257 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 1196325016258 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196325016259 putative substrate translocation pore; other site 1196325016260 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1196325016261 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1196325016262 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1196325016263 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1196325016264 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 1196325016265 TPP-binding site [chemical binding]; other site 1196325016266 dimer interface [polypeptide binding]; other site 1196325016267 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1196325016268 GAF domain; Region: GAF; pfam01590 1196325016269 Phytochrome region; Region: PHY; pfam00360 1196325016270 HWE histidine kinase; Region: HWE_HK; pfam07536 1196325016271 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196325016272 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 1196325016273 active site 1196325016274 phosphorylation site [posttranslational modification] 1196325016275 intermolecular recognition site; other site 1196325016276 dimerization interface [polypeptide binding]; other site 1196325016277 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 1196325016278 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196325016279 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1196325016280 AsnC family; Region: AsnC_trans_reg; pfam01037 1196325016281 hypothetical protein; Provisional; Region: PRK06148 1196325016282 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 1196325016283 active site 1196325016284 ATP binding site [chemical binding]; other site 1196325016285 substrate binding site [chemical binding]; other site 1196325016286 Peptidase family M23; Region: Peptidase_M23; pfam01551 1196325016287 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 1196325016288 inhibitor-cofactor binding pocket; inhibition site 1196325016289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196325016290 catalytic residue [active] 1196325016291 mechanosensitive channel MscS; Provisional; Region: PRK10334 1196325016292 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1196325016293 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325016294 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325016295 metal binding site [ion binding]; metal-binding site 1196325016296 active site 1196325016297 I-site; other site 1196325016298 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1196325016299 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 1196325016300 N-terminal plug; other site 1196325016301 ligand-binding site [chemical binding]; other site 1196325016302 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1196325016303 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 1196325016304 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1196325016305 N-terminal plug; other site 1196325016306 ligand-binding site [chemical binding]; other site 1196325016307 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1196325016308 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1196325016309 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325016310 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325016311 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 1196325016312 dimerization interface [polypeptide binding]; other site 1196325016313 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196325016314 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 1196325016315 putative metal binding site [ion binding]; other site 1196325016316 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1196325016317 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1196325016318 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 1196325016319 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1196325016320 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 1196325016321 N-terminal plug; other site 1196325016322 ligand-binding site [chemical binding]; other site 1196325016323 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1196325016324 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325016325 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 1196325016326 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 1196325016327 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1196325016328 dimer interface [polypeptide binding]; other site 1196325016329 acyl-activating enzyme (AAE) consensus motif; other site 1196325016330 putative active site [active] 1196325016331 AMP binding site [chemical binding]; other site 1196325016332 putative CoA binding site [chemical binding]; other site 1196325016333 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196325016334 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1196325016335 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196325016336 enoyl-CoA hydratase; Provisional; Region: PRK06495 1196325016337 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 1196325016338 substrate binding site [chemical binding]; other site 1196325016339 oxyanion hole (OAH) forming residues; other site 1196325016340 trimer interface [polypeptide binding]; other site 1196325016341 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1196325016342 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196325016343 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1196325016344 active site 1196325016345 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1196325016346 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1196325016347 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1196325016348 classical (c) SDRs; Region: SDR_c; cd05233 1196325016349 NAD(P) binding site [chemical binding]; other site 1196325016350 active site 1196325016351 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1196325016352 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1196325016353 CoA binding domain; Region: CoA_binding_2; pfam13380 1196325016354 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1196325016355 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1196325016356 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1196325016357 short chain dehydrogenase; Validated; Region: PRK06484 1196325016358 classical (c) SDRs; Region: SDR_c; cd05233 1196325016359 NAD(P) binding site [chemical binding]; other site 1196325016360 active site 1196325016361 classical (c) SDRs; Region: SDR_c; cd05233 1196325016362 NAD(P) binding site [chemical binding]; other site 1196325016363 active site 1196325016364 enoyl-CoA hydratase; Provisional; Region: PRK08140 1196325016365 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 1196325016366 substrate binding site [chemical binding]; other site 1196325016367 oxyanion hole (OAH) forming residues; other site 1196325016368 trimer interface [polypeptide binding]; other site 1196325016369 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1196325016370 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1196325016371 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 1196325016372 D-galactonate transporter; Region: 2A0114; TIGR00893 1196325016373 putative substrate translocation pore; other site 1196325016374 enoyl-CoA hydratase; Provisional; Region: PRK08138 1196325016375 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 1196325016376 substrate binding site [chemical binding]; other site 1196325016377 oxyanion hole (OAH) forming residues; other site 1196325016378 trimer interface [polypeptide binding]; other site 1196325016379 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1196325016380 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1196325016381 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196325016382 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196325016383 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1196325016384 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1196325016385 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196325016386 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196325016387 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1196325016388 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 1196325016389 putative active site [active] 1196325016390 metal binding site [ion binding]; metal-binding site 1196325016391 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 1196325016392 active site 1196325016393 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1196325016394 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1196325016395 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1196325016396 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1196325016397 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1196325016398 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1196325016399 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1196325016400 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1196325016401 hypothetical protein; Provisional; Region: PRK09256 1196325016402 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1196325016403 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196325016404 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 1196325016405 substrate binding pocket [chemical binding]; other site 1196325016406 membrane-bound complex binding site; other site 1196325016407 hinge residues; other site 1196325016408 putrescine transporter; Provisional; Region: potE; PRK10655 1196325016409 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1196325016410 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 1196325016411 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 1196325016412 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1196325016413 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1196325016414 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1196325016415 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325016416 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325016417 high affinity sulphate transporter 1; Region: sulP; TIGR00815 1196325016418 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1196325016419 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 1196325016420 Ion channel; Region: Ion_trans_2; pfam07885 1196325016421 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325016422 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325016423 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 1196325016424 putative effector binding pocket; other site 1196325016425 dimerization interface [polypeptide binding]; other site 1196325016426 short chain dehydrogenase; Provisional; Region: PRK06500 1196325016427 classical (c) SDRs; Region: SDR_c; cd05233 1196325016428 NAD(P) binding site [chemical binding]; other site 1196325016429 active site 1196325016430 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1196325016431 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1196325016432 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196325016433 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1196325016434 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1196325016435 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 1196325016436 Walker A motif; other site 1196325016437 ATP binding site [chemical binding]; other site 1196325016438 Walker B motif; other site 1196325016439 arginine finger; other site 1196325016440 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1196325016441 DNA-binding interface [nucleotide binding]; DNA binding site 1196325016442 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 1196325016443 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 1196325016444 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1196325016445 catalytic Zn binding site [ion binding]; other site 1196325016446 NAD binding site [chemical binding]; other site 1196325016447 structural Zn binding site [ion binding]; other site 1196325016448 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1196325016449 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1196325016450 NAD(P) binding site [chemical binding]; other site 1196325016451 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1196325016452 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1196325016453 metal binding site [ion binding]; metal-binding site 1196325016454 putative dimer interface [polypeptide binding]; other site 1196325016455 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 1196325016456 metabolite-proton symporter; Region: 2A0106; TIGR00883 1196325016457 putative substrate translocation pore; other site 1196325016458 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325016459 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325016460 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 1196325016461 dimerization interface [polypeptide binding]; other site 1196325016462 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325016463 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325016464 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 1196325016465 putative effector binding pocket; other site 1196325016466 putative dimerization interface [polypeptide binding]; other site 1196325016467 Predicted esterase [General function prediction only]; Region: COG0400 1196325016468 putative hydrolase; Provisional; Region: PRK11460 1196325016469 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 1196325016470 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1196325016471 putative active site [active] 1196325016472 metal binding site [ion binding]; metal-binding site 1196325016473 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1196325016474 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1196325016475 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1196325016476 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 1196325016477 dimer interface [polypeptide binding]; other site 1196325016478 FMN binding site [chemical binding]; other site 1196325016479 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1196325016480 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1196325016481 active site 1 [active] 1196325016482 dimer interface [polypeptide binding]; other site 1196325016483 hexamer interface [polypeptide binding]; other site 1196325016484 active site 2 [active] 1196325016485 Predicted membrane protein [Function unknown]; Region: COG2259 1196325016486 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325016487 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325016488 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 1196325016489 putative effector binding pocket; other site 1196325016490 dimerization interface [polypeptide binding]; other site 1196325016491 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 1196325016492 classical (c) SDRs; Region: SDR_c; cd05233 1196325016493 NAD(P) binding site [chemical binding]; other site 1196325016494 active site 1196325016495 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1196325016496 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1196325016497 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1196325016498 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1196325016499 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1196325016500 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1196325016501 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1196325016502 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325016503 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325016504 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 1196325016505 putative effector binding pocket; other site 1196325016506 putative dimerization interface [polypeptide binding]; other site 1196325016507 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 1196325016508 dimerization interface [polypeptide binding]; other site 1196325016509 putative DNA binding site [nucleotide binding]; other site 1196325016510 putative Zn2+ binding site [ion binding]; other site 1196325016511 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325016512 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325016513 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 1196325016514 substrate binding pocket [chemical binding]; other site 1196325016515 dimerization interface [polypeptide binding]; other site 1196325016516 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325016517 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325016518 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 1196325016519 dimerizarion interface [polypeptide binding]; other site 1196325016520 CrgA pocket; other site 1196325016521 substrate binding pocket [chemical binding]; other site 1196325016522 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1196325016523 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 1196325016524 octamer interface [polypeptide binding]; other site 1196325016525 active site 1196325016526 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 1196325016527 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1196325016528 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 1196325016529 dimer interface [polypeptide binding]; other site 1196325016530 active site 1196325016531 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1196325016532 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1196325016533 Sulfatase; Region: Sulfatase; pfam00884 1196325016534 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1196325016535 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1196325016536 benzoate transport; Region: 2A0115; TIGR00895 1196325016537 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 1196325016538 putative substrate translocation pore; other site 1196325016539 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 1196325016540 putative substrate translocation pore; other site 1196325016541 salicylate 1-monooxygenase; Region: salicylate_mono; TIGR03219 1196325016542 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1196325016543 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 1196325016544 dimer interface [polypeptide binding]; other site 1196325016545 active site 1196325016546 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1196325016547 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 1196325016548 catalytic Zn binding site [ion binding]; other site 1196325016549 NAD binding site [chemical binding]; other site 1196325016550 structural Zn binding site [ion binding]; other site 1196325016551 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1196325016552 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 1196325016553 NAD(P) binding site [chemical binding]; other site 1196325016554 catalytic residues [active] 1196325016555 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196325016556 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325016557 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325016558 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196325016559 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 1196325016560 active site 1196325016561 metal binding site [ion binding]; metal-binding site 1196325016562 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1196325016563 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 1196325016564 active site 1196325016565 FMN binding site [chemical binding]; other site 1196325016566 substrate binding site [chemical binding]; other site 1196325016567 putative catalytic residue [active] 1196325016568 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1196325016569 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196325016570 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1196325016571 putative homodimer-homodimer interface [polypeptide binding]; other site 1196325016572 putative allosteric switch controlling residues; other site 1196325016573 putative metal binding site [ion binding]; other site 1196325016574 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1196325016575 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1196325016576 substrate binding site [chemical binding]; other site 1196325016577 catalytic Zn binding site [ion binding]; other site 1196325016578 NAD binding site [chemical binding]; other site 1196325016579 structural Zn binding site [ion binding]; other site 1196325016580 dimer interface [polypeptide binding]; other site 1196325016581 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 1196325016582 transcriptional regulator; Provisional; Region: PRK10632 1196325016583 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325016584 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_8; cd08477 1196325016585 putative effector binding pocket; other site 1196325016586 putative dimerization interface [polypeptide binding]; other site 1196325016587 Outer membrane efflux protein; Region: OEP; pfam02321 1196325016588 Outer membrane efflux protein; Region: OEP; pfam02321 1196325016589 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1196325016590 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1196325016591 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325016592 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325016593 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1196325016594 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325016595 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 1196325016596 putative effector binding pocket; other site 1196325016597 putative dimerization interface [polypeptide binding]; other site 1196325016598 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 1196325016599 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196325016600 putative substrate translocation pore; other site 1196325016601 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 1196325016602 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1196325016603 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 1196325016604 trimer interface [polypeptide binding]; other site 1196325016605 eyelet of channel; other site 1196325016606 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1196325016607 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1196325016608 PAS domain; Region: PAS; smart00091 1196325016609 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 1196325016610 Walker A motif; other site 1196325016611 ATP binding site [chemical binding]; other site 1196325016612 Walker B motif; other site 1196325016613 arginine finger; other site 1196325016614 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1196325016615 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 1196325016616 dimer interface [polypeptide binding]; other site 1196325016617 active site 1196325016618 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1196325016619 folate binding site [chemical binding]; other site 1196325016620 lipoyl synthase; Provisional; Region: PRK05481 1196325016621 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 1196325016622 FeS/SAM binding site; other site 1196325016623 benzoate transport; Region: 2A0115; TIGR00895 1196325016624 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 1196325016625 putative substrate translocation pore; other site 1196325016626 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196325016627 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196325016628 active site 1196325016629 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1196325016630 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1196325016631 Bacterial transcriptional regulator; Region: IclR; pfam01614 1196325016632 enoyl-CoA hydratase; Provisional; Region: PRK08138 1196325016633 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 1196325016634 substrate binding site [chemical binding]; other site 1196325016635 oxyanion hole (OAH) forming residues; other site 1196325016636 trimer interface [polypeptide binding]; other site 1196325016637 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1196325016638 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1196325016639 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196325016640 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196325016641 acetyl-CoA acetyltransferase; Provisional; Region: PRK08131 1196325016642 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 1196325016643 dimer interface [polypeptide binding]; other site 1196325016644 active site 1196325016645 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1196325016646 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1196325016647 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 1196325016648 Ligand binding site [chemical binding]; other site 1196325016649 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1196325016650 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1196325016651 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 1196325016652 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1196325016653 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1196325016654 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 1196325016655 Walker A motif; other site 1196325016656 ATP binding site [chemical binding]; other site 1196325016657 Walker B motif; other site 1196325016658 arginine finger; other site 1196325016659 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196325016660 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1196325016661 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325016662 NAD(P) binding site [chemical binding]; other site 1196325016663 active site 1196325016664 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1196325016665 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1196325016666 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1196325016667 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1196325016668 tetramerization interface [polypeptide binding]; other site 1196325016669 NAD(P) binding site [chemical binding]; other site 1196325016670 catalytic residues [active] 1196325016671 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 1196325016672 acetoin reductase; Validated; Region: PRK08643 1196325016673 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 1196325016674 NAD binding site [chemical binding]; other site 1196325016675 homotetramer interface [polypeptide binding]; other site 1196325016676 homodimer interface [polypeptide binding]; other site 1196325016677 active site 1196325016678 substrate binding site [chemical binding]; other site 1196325016679 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1196325016680 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 1196325016681 dimer interface [polypeptide binding]; other site 1196325016682 active site 1196325016683 metal binding site [ion binding]; metal-binding site 1196325016684 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325016685 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325016686 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_2; cd08464 1196325016687 putative substrate binding pocket [chemical binding]; other site 1196325016688 putative dimerization interface [polypeptide binding]; other site 1196325016689 Predicted membrane protein [Function unknown]; Region: COG2860 1196325016690 UPF0126 domain; Region: UPF0126; pfam03458 1196325016691 UPF0126 domain; Region: UPF0126; pfam03458 1196325016692 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1196325016693 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 1196325016694 metal binding site [ion binding]; metal-binding site 1196325016695 putative dimer interface [polypeptide binding]; other site 1196325016696 MarR family; Region: MarR_2; cl17246 1196325016697 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 1196325016698 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1196325016699 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 1196325016700 putative substrate translocation pore; other site 1196325016701 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1196325016702 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325016703 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1196325016704 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196325016705 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325016706 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196325016707 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196325016708 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 1196325016709 putative effector binding pocket; other site 1196325016710 dimerization interface [polypeptide binding]; other site 1196325016711 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1196325016712 MULE transposase domain; Region: MULE; pfam10551 1196325016713 Predicted transporter component [General function prediction only]; Region: COG2391 1196325016714 Sulphur transport; Region: Sulf_transp; pfam04143 1196325016715 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 1196325016716 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1196325016717 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 1196325016718 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 1196325016719 Ligand Binding Site [chemical binding]; other site 1196325016720 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 1196325016721 Ligand Binding Site [chemical binding]; other site 1196325016722 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 1196325016723 Ligand Binding Site [chemical binding]; other site 1196325016724 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1196325016725 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1196325016726 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1196325016727 Hemerythrin-like domain; Region: Hr-like; cd12108 1196325016728 Fe binding site [ion binding]; other site 1196325016729 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1196325016730 BON domain; Region: BON; pfam04972 1196325016731 BON domain; Region: BON; pfam04972 1196325016732 BON domain; Region: BON; pfam04972 1196325016733 FtsH Extracellular; Region: FtsH_ext; pfam06480 1196325016734 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1196325016735 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 1196325016736 Walker A motif; other site 1196325016737 ATP binding site [chemical binding]; other site 1196325016738 Walker B motif; other site 1196325016739 arginine finger; other site 1196325016740 Peptidase family M41; Region: Peptidase_M41; pfam01434 1196325016741 Ion channel; Region: Ion_trans_2; pfam07885 1196325016742 putative phosphoketolase; Provisional; Region: PRK05261 1196325016743 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 1196325016744 TPP-binding site; other site 1196325016745 XFP C-terminal domain; Region: XFP_C; pfam09363 1196325016746 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 1196325016747 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1196325016748 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 1196325016749 putative dimer interface [polypeptide binding]; other site 1196325016750 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 1196325016751 ligand binding site [chemical binding]; other site 1196325016752 flexible hinge region; other site 1196325016753 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 1196325016754 putative switch regulator; other site 1196325016755 non-specific DNA interactions [nucleotide binding]; other site 1196325016756 DNA binding site [nucleotide binding] 1196325016757 sequence specific DNA binding site [nucleotide binding]; other site 1196325016758 putative cAMP binding site [chemical binding]; other site 1196325016759 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1196325016760 Protein of unknown function, DUF399; Region: DUF399; cl01139 1196325016761 Erythromycin esterase; Region: Erythro_esteras; pfam05139 1196325016762 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196325016763 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1196325016764 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1196325016765 Beta-Casp domain; Region: Beta-Casp; smart01027 1196325016766 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1196325016767 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 1196325016768 Ligand Binding Site [chemical binding]; other site 1196325016769 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 1196325016770 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196325016771 Coenzyme A binding pocket [chemical binding]; other site 1196325016772 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 1196325016773 Ligand Binding Site [chemical binding]; other site 1196325016774 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1196325016775 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 1196325016776 ligand binding site [chemical binding]; other site 1196325016777 flexible hinge region; other site 1196325016778 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 1196325016779 putative switch regulator; other site 1196325016780 non-specific DNA interactions [nucleotide binding]; other site 1196325016781 DNA binding site [nucleotide binding] 1196325016782 sequence specific DNA binding site [nucleotide binding]; other site 1196325016783 putative cAMP binding site [chemical binding]; other site 1196325016784 Predicted membrane protein [Function unknown]; Region: COG3174 1196325016785 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 1196325016786 PaaX-like protein; Region: PaaX; pfam07848 1196325016787 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 1196325016788 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1196325016789 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 1196325016790 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 1196325016791 putative trimer interface [polypeptide binding]; other site 1196325016792 putative metal binding site [ion binding]; other site 1196325016793 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 1196325016794 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 1196325016795 substrate binding site [chemical binding]; other site 1196325016796 oxyanion hole (OAH) forming residues; other site 1196325016797 trimer interface [polypeptide binding]; other site 1196325016798 enoyl-CoA hydratase; Provisional; Region: PRK08140 1196325016799 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 1196325016800 substrate binding site [chemical binding]; other site 1196325016801 oxyanion hole (OAH) forming residues; other site 1196325016802 trimer interface [polypeptide binding]; other site 1196325016803 3-hydroxyacyl-CoA dehydrogenase PaaC; Region: PaaC-3OHAcCoADH; TIGR02279 1196325016804 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1196325016805 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196325016806 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196325016807 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 1196325016808 CoenzymeA binding site [chemical binding]; other site 1196325016809 subunit interaction site [polypeptide binding]; other site 1196325016810 PHB binding site; other site 1196325016811 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1196325016812 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 1196325016813 dimer interface [polypeptide binding]; other site 1196325016814 active site 1196325016815 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 1196325016816 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1196325016817 active site 1196325016818 AMP binding site [chemical binding]; other site 1196325016819 homodimer interface [polypeptide binding]; other site 1196325016820 acyl-activating enzyme (AAE) consensus motif; other site 1196325016821 CoA binding site [chemical binding]; other site 1196325016822 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1196325016823 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1196325016824 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1196325016825 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1196325016826 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1196325016827 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1196325016828 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1196325016829 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 1196325016830 FAD binding pocket [chemical binding]; other site 1196325016831 FAD binding motif [chemical binding]; other site 1196325016832 phosphate binding motif [ion binding]; other site 1196325016833 beta-alpha-beta structure motif; other site 1196325016834 NAD(p) ribose binding residues [chemical binding]; other site 1196325016835 NAD binding pocket [chemical binding]; other site 1196325016836 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1196325016837 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 1196325016838 catalytic loop [active] 1196325016839 iron binding site [ion binding]; other site 1196325016840 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1196325016841 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1196325016842 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1196325016843 Na binding site [ion binding]; other site 1196325016844 outer membrane porin, OprD family; Region: OprD; pfam03573 1196325016845 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 1196325016846 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 1196325016847 substrate binding site [chemical binding]; other site 1196325016848 dimer interface [polypeptide binding]; other site 1196325016849 NADP binding site [chemical binding]; other site 1196325016850 catalytic residues [active] 1196325016851 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 1196325016852 substrate binding site [chemical binding]; other site 1196325016853 General stress protein [General function prediction only]; Region: GsiB; COG3729 1196325016854 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_10; cd04667 1196325016855 nudix motif; other site 1196325016856 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1196325016857 active site 1196325016858 Protein of unknown function DUF72; Region: DUF72; pfam01904 1196325016859 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1196325016860 putative catalytic site [active] 1196325016861 putative metal binding site [ion binding]; other site 1196325016862 putative phosphate binding site [ion binding]; other site 1196325016863 cardiolipin synthase 2; Provisional; Region: PRK11263 1196325016864 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1196325016865 putative active site [active] 1196325016866 catalytic site [active] 1196325016867 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1196325016868 putative active site [active] 1196325016869 catalytic site [active] 1196325016870 Predicted integral membrane protein [Function unknown]; Region: COG0392 1196325016871 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 1196325016872 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1196325016873 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1196325016874 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1196325016875 active site 1196325016876 DNA binding site [nucleotide binding] 1196325016877 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 1196325016878 DNA binding site [nucleotide binding] 1196325016879 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 1196325016880 nucleotide binding site [chemical binding]; other site 1196325016881 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196325016882 active site 1196325016883 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196325016884 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1196325016885 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 1196325016886 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 1196325016887 active site 1196325016888 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1196325016889 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 1196325016890 putative DNA binding site [nucleotide binding]; other site 1196325016891 putative homodimer interface [polypeptide binding]; other site 1196325016892 nucleosidase; Provisional; Region: PRK05634 1196325016893 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1196325016894 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1196325016895 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1196325016896 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1196325016897 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 1196325016898 S-adenosylmethionine binding site [chemical binding]; other site 1196325016899 TLC ATP/ADP transporter; Region: TLC; cl03940 1196325016900 TLC ATP/ADP transporter; Region: TLC; cl03940 1196325016901 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 1196325016902 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1196325016903 active site 1196325016904 catalytic tetrad [active] 1196325016905 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 1196325016906 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1196325016907 Sodium Bile acid symporter family; Region: SBF; pfam01758 1196325016908 beta-carotene hydroxylase; Region: PLN02601 1196325016909 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1196325016910 MgtC family; Region: MgtC; pfam02308 1196325016911 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1196325016912 Cache domain; Region: Cache_1; pfam02743 1196325016913 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196325016914 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196325016915 metal binding site [ion binding]; metal-binding site 1196325016916 active site 1196325016917 I-site; other site 1196325016918 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1196325016919 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325016920 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1196325016921 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1196325016922 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1196325016923 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1196325016924 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 1196325016925 iron-sulfur cluster [ion binding]; other site 1196325016926 [2Fe-2S] cluster binding site [ion binding]; other site 1196325016927 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1196325016928 hydrophobic ligand binding site; other site 1196325016929 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1196325016930 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1196325016931 Walker A/P-loop; other site 1196325016932 ATP binding site [chemical binding]; other site 1196325016933 Q-loop/lid; other site 1196325016934 ABC transporter signature motif; other site 1196325016935 Walker B; other site 1196325016936 D-loop; other site 1196325016937 H-loop/switch region; other site 1196325016938 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1196325016939 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 1196325016940 dimer interface [polypeptide binding]; other site 1196325016941 conserved gate region; other site 1196325016942 ABC-ATPase subunit interface; other site 1196325016943 amidohydrolase; Provisional; Region: PRK12393 1196325016944 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 1196325016945 active site 1196325016946 putative substrate binding pocket [chemical binding]; other site 1196325016947 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1196325016948 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 1196325016949 FMN-binding pocket [chemical binding]; other site 1196325016950 flavin binding motif; other site 1196325016951 phosphate binding motif [ion binding]; other site 1196325016952 beta-alpha-beta structure motif; other site 1196325016953 NAD binding pocket [chemical binding]; other site 1196325016954 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 1196325016955 catalytic loop [active] 1196325016956 iron binding site [ion binding]; other site 1196325016957 Putative cyclase; Region: Cyclase; pfam04199 1196325016958 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1196325016959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196325016960 NAD(P) binding site [chemical binding]; other site 1196325016961 active site 1196325016962 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 1196325016963 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1196325016964 Cupin domain; Region: Cupin_2; pfam07883 1196325016965 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 1196325016966 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196325016967 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1196325016968 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 1196325016969 active site 1196325016970 HslU subunit interaction site [polypeptide binding]; other site 1196325016971 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1196325016972 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 1196325016973 Walker A motif; other site 1196325016974 ATP binding site [chemical binding]; other site 1196325016975 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1196325016976 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1196325016977 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1196325016978 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 1196325016979 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1196325016980 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 1196325016981 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1196325016982 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1196325016983 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 1196325016984 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196325016985 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196325016986 Bacterial transcriptional repressor; Region: TetR; pfam13972 1196325016987 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 1196325016988 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 1196325016989 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 1196325016990 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1196325016991 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 1196325016992 S-adenosylmethionine binding site [chemical binding]; other site 1196325016993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1196325016994 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1196325016995 ABC1 family; Region: ABC1; cl17513 1196325016996 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1196325016997 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1196325016998 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1196325016999 putative active site [active] 1196325017000 putative PHP Thumb interface [polypeptide binding]; other site 1196325017001 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 1196325017002 generic binding surface I; other site 1196325017003 generic binding surface II; other site 1196325017004 DNA Polymerase Y-family; Region: PolY_like; cd03468 1196325017005 active site 1196325017006 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1196325017007 DNA binding site [nucleotide binding] 1196325017008 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1196325017009 LexA repressor; Provisional; Region: PRK12423 1196325017010 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1196325017011 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 1196325017012 Catalytic site [active] 1196325017013 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1196325017014 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 1196325017015 motif II; other site 1196325017016 benzoate transport; Region: 2A0115; TIGR00895 1196325017017 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 1196325017018 putative substrate translocation pore; other site 1196325017019 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 1196325017020 NIPSNAP; Region: NIPSNAP; pfam07978 1196325017021 putative succinate dehydrogenase; Reviewed; Region: PRK12842 1196325017022 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1196325017023 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1196325017024 classical (c) SDRs; Region: SDR_c; cd05233 1196325017025 NAD(P) binding site [chemical binding]; other site 1196325017026 active site 1196325017027 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 1196325017028 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196325017029 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1196325017030 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1196325017031 amidase; Provisional; Region: PRK07486 1196325017032 Amidase; Region: Amidase; cl11426 1196325017033 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 1196325017034 metabolite-proton symporter; Region: 2A0106; TIGR00883 1196325017035 putative substrate translocation pore; other site 1196325017036 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1196325017037 Paraquat-inducible protein A; Region: PqiA; pfam04403 1196325017038 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1196325017039 Paraquat-inducible protein A; Region: PqiA; pfam04403 1196325017040 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1196325017041 mce related protein; Region: MCE; pfam02470 1196325017042 mce related protein; Region: MCE; pfam02470 1196325017043 mce related protein; Region: MCE; pfam02470 1196325017044 mce related protein; Region: MCE; pfam02470 1196325017045 mce related protein; Region: MCE; pfam02470 1196325017046 mce related protein; Region: MCE; pfam02470 1196325017047 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1196325017048 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1196325017049 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1196325017050 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1196325017051 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1196325017052 active site 1196325017053 Riboflavin kinase; Region: Flavokinase; pfam01687 1196325017054 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1196325017055 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1196325017056 active site 1196325017057 HIGH motif; other site 1196325017058 nucleotide binding site [chemical binding]; other site 1196325017059 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1196325017060 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1196325017061 active site 1196325017062 KMSKS motif; other site 1196325017063 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1196325017064 tRNA binding surface [nucleotide binding]; other site 1196325017065 anticodon binding site; other site 1196325017066 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1196325017067 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1196325017068 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1196325017069 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1196325017070 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1196325017071 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1196325017072 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1196325017073 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 1196325017074 TPR motif; other site 1196325017075 binding surface 1196325017076 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 1196325017077 binding surface 1196325017078 TPR motif; other site 1196325017079 TPR repeat; Region: TPR_11; pfam13414 1196325017080 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 1196325017081 binding surface 1196325017082 TPR motif; other site 1196325017083 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1196325017084 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1196325017085 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1196325017086 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1196325017087 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1196325017088 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1196325017089 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196325017090 active site 1196325017091 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1196325017092 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1196325017093 5S rRNA interface [nucleotide binding]; other site 1196325017094 CTC domain interface [polypeptide binding]; other site 1196325017095 L16 interface [polypeptide binding]; other site 1196325017096 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 1196325017097 putative active site [active] 1196325017098 catalytic residue [active] 1196325017099 GTP-binding protein YchF; Reviewed; Region: PRK09601 1196325017100 YchF GTPase; Region: YchF; cd01900 1196325017101 G1 box; other site 1196325017102 GTP/Mg2+ binding site [chemical binding]; other site 1196325017103 Switch I region; other site 1196325017104 G2 box; other site 1196325017105 Switch II region; other site 1196325017106 G3 box; other site 1196325017107 G4 box; other site 1196325017108 G5 box; other site 1196325017109 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 1196325017110 short chain dehydrogenase; Provisional; Region: PRK07577 1196325017111 classical (c) SDRs; Region: SDR_c; cd05233 1196325017112 NAD(P) binding site [chemical binding]; other site 1196325017113 active site 1196325017114 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1196325017115 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1196325017116 potential catalytic triad [active] 1196325017117 conserved cys residue [active] 1196325017118 LysR family transcriptional regulator; Provisional; Region: PRK14997 1196325017119 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 1196325017120 putative effector binding pocket; other site 1196325017121 dimerization interface [polypeptide binding]; other site 1196325017122 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1196325017123 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1196325017124 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1196325017125 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 1196325017126 multidrug resistance protein MdtN; Provisional; Region: PRK10476 1196325017127 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196325017128 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196325017129 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1196325017130 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1196325017131 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1196325017132 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1196325017133 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1196325017134 Isochorismatase family; Region: Isochorismatase; pfam00857 1196325017135 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 1196325017136 catalytic triad [active] 1196325017137 dimer interface [polypeptide binding]; other site 1196325017138 conserved cis-peptide bond; other site 1196325017139 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1196325017140 SnoaL-like domain; Region: SnoaL_3; pfam13474 1196325017141 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 1196325017142 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1196325017143 Na binding site [ion binding]; other site 1196325017144 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1196325017145 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 1196325017146 NAD(P) binding site [chemical binding]; other site 1196325017147 catalytic residues [active] 1196325017148 catalytic residues [active] 1196325017149 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 1196325017150 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 1196325017151 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1196325017152 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 1196325017153 dimer interface [polypeptide binding]; other site 1196325017154 anticodon binding site; other site 1196325017155 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 1196325017156 homodimer interface [polypeptide binding]; other site 1196325017157 motif 1; other site 1196325017158 active site 1196325017159 motif 2; other site 1196325017160 GAD domain; Region: GAD; pfam02938 1196325017161 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 1196325017162 active site 1196325017163 motif 3; other site 1196325017164 hypothetical protein; Validated; Region: PRK00110 1196325017165 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 1196325017166 active site 1196325017167 putative DNA-binding cleft [nucleotide binding]; other site 1196325017168 dimer interface [polypeptide binding]; other site 1196325017169 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1196325017170 RuvA N terminal domain; Region: RuvA_N; pfam01330 1196325017171 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1196325017172 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 1196325017173 Walker A motif; other site 1196325017174 ATP binding site [chemical binding]; other site 1196325017175 Walker B motif; other site 1196325017176 arginine finger; other site 1196325017177 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1196325017178 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 1196325017179 active site 1196325017180 TolQ protein; Region: tolQ; TIGR02796 1196325017181 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1196325017182 TolR protein; Region: tolR; TIGR02801 1196325017183 TolA protein; Region: tolA_full; TIGR02794 1196325017184 TolA protein; Region: tolA_full; TIGR02794 1196325017185 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1196325017186 translocation protein TolB; Provisional; Region: tolB; PRK00178 1196325017187 TolB amino-terminal domain; Region: TolB_N; pfam04052 1196325017188 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1196325017189 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1196325017190 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1196325017191 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196325017192 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196325017193 ligand binding site [chemical binding]; other site 1196325017194 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1196325017195 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 1196325017196 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1196325017197 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 1196325017198 Ligand Binding Site [chemical binding]; other site 1196325017199 Cation efflux family; Region: Cation_efflux; cl00316 1196325017200 Cache domain; Region: Cache_1; pfam02743 1196325017201 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 1196325017202 dimerization interface [polypeptide binding]; other site 1196325017203 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196325017204 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196325017205 dimer interface [polypeptide binding]; other site 1196325017206 putative CheW interface [polypeptide binding]; other site 1196325017207 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1196325017208 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1196325017209 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1196325017210 quinolinate synthetase; Provisional; Region: PRK09375 1196325017211 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1196325017212 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 1196325017213 TPP-binding site; other site 1196325017214 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 1196325017215 PYR/PP interface [polypeptide binding]; other site 1196325017216 dimer interface [polypeptide binding]; other site 1196325017217 TPP binding site [chemical binding]; other site 1196325017218 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1196325017219 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1196325017220 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1196325017221 substrate binding pocket [chemical binding]; other site 1196325017222 chain length determination region; other site 1196325017223 substrate-Mg2+ binding site; other site 1196325017224 catalytic residues [active] 1196325017225 aspartate-rich region 1; other site 1196325017226 active site lid residues [active] 1196325017227 aspartate-rich region 2; other site 1196325017228 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1196325017229 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 1196325017230 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 1196325017231 Zeta toxin; Region: Zeta_toxin; pfam06414 1196325017232 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1196325017233 Putative esterase; Region: Esterase; pfam00756 1196325017234 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196325017235 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 1196325017236 phosphorylation site [posttranslational modification] 1196325017237 dimer interface [polypeptide binding]; other site 1196325017238 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 1196325017239 ATP binding site [chemical binding]; other site 1196325017240 Mg2+ binding site [ion binding]; other site 1196325017241 G-X-G motif; other site 1196325017242 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196325017243 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 1196325017244 active site 1196325017245 phosphorylation site [posttranslational modification] 1196325017246 intermolecular recognition site; other site 1196325017247 dimerization interface [polypeptide binding]; other site 1196325017248 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 1196325017249 DNA binding site [nucleotide binding] 1196325017250 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1196325017251 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 1196325017252 N-terminal plug; other site 1196325017253 ligand-binding site [chemical binding]; other site 1196325017254 Hemerythrin-like domain; Region: Hr-like; cd12108 1196325017255 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1196325017256 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1196325017257 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1196325017258 recombination associated protein; Reviewed; Region: rdgC; PRK00321