-- dump date 20140619_063523 -- class Genbank::misc_feature -- table misc_feature_note -- id note 177439000001 Methyltransferase domain; Region: Methyltransf_23; pfam13489 177439000002 Methyltransferase domain; Region: Methyltransf_11; pfam08241 177439000003 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 177439000004 RNase_H superfamily; Region: RNase_H_2; pfam13482 177439000005 active site 177439000006 substrate binding site [chemical binding]; other site 177439000007 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 177439000008 HDOD domain; Region: HDOD; pfam08668 177439000009 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439000010 Zn2+ binding site [ion binding]; other site 177439000011 Mg2+ binding site [ion binding]; other site 177439000012 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 177439000013 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 177439000014 active site 177439000015 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 177439000016 elongation factor G; Reviewed; Region: PRK12740 177439000017 G1 box; other site 177439000018 putative GEF interaction site [polypeptide binding]; other site 177439000019 GTP/Mg2+ binding site [chemical binding]; other site 177439000020 Switch I region; other site 177439000021 G2 box; other site 177439000022 G3 box; other site 177439000023 Switch II region; other site 177439000024 G4 box; other site 177439000025 G5 box; other site 177439000026 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_II_like; cd04091 177439000027 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 177439000028 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 177439000029 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 177439000030 putative active site [active] 177439000031 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 177439000032 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 177439000033 active site 177439000034 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 177439000035 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 177439000036 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 177439000037 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 177439000038 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 177439000039 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 177439000040 trimer interface [polypeptide binding]; other site 177439000041 active site 177439000042 substrate binding site [chemical binding]; other site 177439000043 CoA binding site [chemical binding]; other site 177439000044 O-Antigen ligase; Region: Wzy_C; pfam04932 177439000045 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 177439000046 active site 177439000047 tetramer interface; other site 177439000048 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 177439000049 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 177439000050 NADP binding site [chemical binding]; other site 177439000051 active site 177439000052 putative substrate binding site [chemical binding]; other site 177439000053 GxxExxY protein; Region: GxxExxY; TIGR04256 177439000054 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 177439000055 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 177439000056 NADP-binding site; other site 177439000057 homotetramer interface [polypeptide binding]; other site 177439000058 substrate binding site [chemical binding]; other site 177439000059 homodimer interface [polypeptide binding]; other site 177439000060 active site 177439000061 UDP-glucose 4-epimerase; Region: PLN02240 177439000062 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 177439000063 NAD binding site [chemical binding]; other site 177439000064 homodimer interface [polypeptide binding]; other site 177439000065 active site 177439000066 substrate binding site [chemical binding]; other site 177439000067 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 177439000068 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 177439000069 inhibitor-cofactor binding pocket; inhibition site 177439000070 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439000071 catalytic residue [active] 177439000072 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 177439000073 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 177439000074 putative trimer interface [polypeptide binding]; other site 177439000075 putative CoA binding site [chemical binding]; other site 177439000076 Bacterial sugar transferase; Region: Bac_transf; pfam02397 177439000077 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 177439000078 putative ADP-binding pocket [chemical binding]; other site 177439000079 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177439000080 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 177439000081 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177439000082 putative ADP-binding pocket [chemical binding]; other site 177439000083 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 177439000084 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 177439000085 active site 177439000086 dimer interface [polypeptide binding]; other site 177439000087 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 177439000088 Ligand Binding Site [chemical binding]; other site 177439000089 Molecular Tunnel; other site 177439000090 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 177439000091 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 177439000092 trimer interface [polypeptide binding]; other site 177439000093 active site 177439000094 substrate binding site [chemical binding]; other site 177439000095 CoA binding site [chemical binding]; other site 177439000096 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 177439000097 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 177439000098 active site 177439000099 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 177439000100 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 177439000101 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 177439000102 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 177439000103 WbqC-like protein family; Region: WbqC; pfam08889 177439000104 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 177439000105 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 177439000106 inhibitor-cofactor binding pocket; inhibition site 177439000107 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439000108 catalytic residue [active] 177439000109 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 177439000110 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 177439000111 substrate binding site; other site 177439000112 tetramer interface; other site 177439000113 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 177439000114 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 177439000115 NAD binding site [chemical binding]; other site 177439000116 substrate binding site [chemical binding]; other site 177439000117 homodimer interface [polypeptide binding]; other site 177439000118 active site 177439000119 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 177439000120 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 177439000121 NAD binding site [chemical binding]; other site 177439000122 substrate binding site [chemical binding]; other site 177439000123 homodimer interface [polypeptide binding]; other site 177439000124 active site 177439000125 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 177439000126 prephenate dehydrogenase; Validated; Region: PRK08507 177439000127 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 177439000128 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 177439000129 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 177439000130 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 177439000131 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 177439000132 NAD(P) binding site [chemical binding]; other site 177439000133 homodimer interface [polypeptide binding]; other site 177439000134 substrate binding site [chemical binding]; other site 177439000135 active site 177439000136 GxxExxY protein; Region: GxxExxY; TIGR04256 177439000137 endonuclease IV; Provisional; Region: PRK01060 177439000138 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 177439000139 AP (apurinic/apyrimidinic) site pocket; other site 177439000140 DNA interaction; other site 177439000141 Metal-binding active site; metal-binding site 177439000142 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; cl16254 177439000143 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; cl16254 177439000144 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 177439000145 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 177439000146 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177439000147 FAD binding domain; Region: FAD_binding_4; pfam01565 177439000148 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 177439000149 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 177439000150 DHH family; Region: DHH; pfam01368 177439000151 FOG: CBS domain [General function prediction only]; Region: COG0517 177439000152 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 177439000153 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 177439000154 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 177439000155 active site 177439000156 NTP binding site [chemical binding]; other site 177439000157 metal binding triad [ion binding]; metal-binding site 177439000158 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 177439000159 Peptidase family M50; Region: Peptidase_M50; pfam02163 177439000160 active site 177439000161 putative substrate binding region [chemical binding]; other site 177439000162 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177439000163 EamA-like transporter family; Region: EamA; pfam00892 177439000164 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 177439000165 ATP cone domain; Region: ATP-cone; pfam03477 177439000166 Class III ribonucleotide reductase; Region: RNR_III; cd01675 177439000167 effector binding site; other site 177439000168 active site 177439000169 Zn binding site [ion binding]; other site 177439000170 glycine loop; other site 177439000171 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 177439000172 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 177439000173 FeS/SAM binding site; other site 177439000174 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 177439000175 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 177439000176 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 177439000177 acyl-activating enzyme (AAE) consensus motif; other site 177439000178 putative AMP binding site [chemical binding]; other site 177439000179 putative active site [active] 177439000180 putative CoA binding site [chemical binding]; other site 177439000181 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 177439000182 sialate_O-acetylesterase_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: sialate_O-acetylesterase_like2; cd01828 177439000183 active site 177439000184 catalytic triad [active] 177439000185 oxyanion hole [active] 177439000186 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 177439000187 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 177439000188 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 177439000189 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 177439000190 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 177439000191 nudix motif; other site 177439000192 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 177439000193 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 177439000194 G1 box; other site 177439000195 putative GEF interaction site [polypeptide binding]; other site 177439000196 GTP/Mg2+ binding site [chemical binding]; other site 177439000197 Switch I region; other site 177439000198 G2 box; other site 177439000199 G3 box; other site 177439000200 Switch II region; other site 177439000201 G4 box; other site 177439000202 G5 box; other site 177439000203 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 177439000204 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 177439000205 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 177439000206 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177439000207 NAD(P) binding site [chemical binding]; other site 177439000208 active site 177439000209 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 177439000210 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 177439000211 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 177439000212 active site 177439000213 catalytic triad [active] 177439000214 oxyanion hole [active] 177439000215 switch loop; other site 177439000216 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 177439000217 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 177439000218 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439000219 Walker A/P-loop; other site 177439000220 ATP binding site [chemical binding]; other site 177439000221 Q-loop/lid; other site 177439000222 ABC transporter signature motif; other site 177439000223 Walker B; other site 177439000224 D-loop; other site 177439000225 H-loop/switch region; other site 177439000226 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 177439000227 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 177439000228 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 177439000229 Walker A/P-loop; other site 177439000230 ATP binding site [chemical binding]; other site 177439000231 Q-loop/lid; other site 177439000232 ABC transporter signature motif; other site 177439000233 Walker B; other site 177439000234 D-loop; other site 177439000235 H-loop/switch region; other site 177439000236 NAD(P)H:flavin oxidoreductase-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; Region: NADPH_oxidoreductase_1; cd02150 177439000237 putative FMN binding site [chemical binding]; other site 177439000238 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 177439000239 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 177439000240 homodimer interface [polypeptide binding]; other site 177439000241 substrate-cofactor binding pocket; other site 177439000242 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439000243 catalytic residue [active] 177439000244 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 177439000245 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 177439000246 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 177439000247 acyl-activating enzyme (AAE) consensus motif; other site 177439000248 putative AMP binding site [chemical binding]; other site 177439000249 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177439000250 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 177439000251 dimer interface [polypeptide binding]; other site 177439000252 conserved gate region; other site 177439000253 putative PBP binding loops; other site 177439000254 ABC-ATPase subunit interface; other site 177439000255 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177439000256 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 177439000257 substrate binding pocket [chemical binding]; other site 177439000258 membrane-bound complex binding site; other site 177439000259 hinge residues; other site 177439000260 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177439000261 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 177439000262 dimer interface [polypeptide binding]; other site 177439000263 conserved gate region; other site 177439000264 putative PBP binding loops; other site 177439000265 ABC-ATPase subunit interface; other site 177439000266 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 177439000267 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177439000268 putative substrate translocation pore; other site 177439000269 nickel responsive regulator; Provisional; Region: PRK04460 177439000270 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 177439000271 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 177439000272 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 177439000273 active site 177439000274 AsmA family; Region: AsmA; pfam05170 177439000275 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 177439000276 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 177439000277 Predicted membrane protein [Function unknown]; Region: COG2259 177439000278 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 177439000279 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 177439000280 Preprotein translocase SecG subunit; Region: SecG; pfam03840 177439000281 triosephosphate isomerase; Provisional; Region: PRK14567 177439000282 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 177439000283 substrate binding site [chemical binding]; other site 177439000284 dimer interface [polypeptide binding]; other site 177439000285 catalytic triad [active] 177439000286 Phosphoglycerate kinase; Region: PGK; pfam00162 177439000287 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 177439000288 substrate binding site [chemical binding]; other site 177439000289 hinge regions; other site 177439000290 ADP binding site [chemical binding]; other site 177439000291 catalytic site [active] 177439000292 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 177439000293 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 177439000294 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 177439000295 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 177439000296 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 177439000297 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 177439000298 dihydroorotase; Validated; Region: pyrC; PRK09357 177439000299 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 177439000300 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 177439000301 active site 177439000302 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 177439000303 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 177439000304 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 177439000305 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 177439000306 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 177439000307 Catalytic site [active] 177439000308 Competence protein A; Region: Competence_A; pfam11104 177439000309 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 177439000310 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 177439000311 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 177439000312 Pilus assembly protein, PilO; Region: PilO; pfam04350 177439000313 AMIN domain; Region: AMIN; pfam11741 177439000314 TPR repeat; Region: TPR_11; pfam13414 177439000315 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 177439000316 binding surface 177439000317 TPR motif; other site 177439000318 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 177439000319 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 177439000320 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 177439000321 preprotein translocase subunit SecB; Validated; Region: PRK05751 177439000322 SecA binding site; other site 177439000323 Preprotein binding site; other site 177439000324 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 177439000325 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 177439000326 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 177439000327 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 177439000328 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 177439000329 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 177439000330 dimer interface [polypeptide binding]; other site 177439000331 motif 1; other site 177439000332 active site 177439000333 motif 2; other site 177439000334 motif 3; other site 177439000335 EamA-like transporter family; Region: EamA; pfam00892 177439000336 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 177439000337 EamA-like transporter family; Region: EamA; pfam00892 177439000338 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 177439000339 putative active site [active] 177439000340 dimerization interface [polypeptide binding]; other site 177439000341 putative tRNAtyr binding site [nucleotide binding]; other site 177439000342 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 177439000343 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 177439000344 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 177439000345 Peptidase M16C associated; Region: M16C_assoc; pfam08367 177439000346 lipoprotein; Provisional; Region: PRK10540 177439000347 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 177439000348 16S rRNA methyltransferase B; Provisional; Region: PRK14902 177439000349 NusB family; Region: NusB; pfam01029 177439000350 putative RNA binding site [nucleotide binding]; other site 177439000351 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 177439000352 S-adenosylmethionine binding site [chemical binding]; other site 177439000353 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 177439000354 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 177439000355 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 177439000356 active site 177439000357 aconitate hydratase; Validated; Region: PRK07229 177439000358 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 177439000359 substrate binding site [chemical binding]; other site 177439000360 ligand binding site [chemical binding]; other site 177439000361 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 177439000362 substrate binding site [chemical binding]; other site 177439000363 DHH family; Region: DHH; pfam01368 177439000364 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 177439000365 FOG: CBS domain [General function prediction only]; Region: COG0517 177439000366 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 177439000367 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 177439000368 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 177439000369 ATP binding site [chemical binding]; other site 177439000370 Walker A motif; other site 177439000371 Walker B motif; other site 177439000372 arginine finger; other site 177439000373 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 177439000374 active site 177439000375 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 177439000376 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 177439000377 dimerization interface [polypeptide binding]; other site 177439000378 putative DNA binding site [nucleotide binding]; other site 177439000379 putative Zn2+ binding site [ion binding]; other site 177439000380 Predicted permeases [General function prediction only]; Region: COG0701 177439000381 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439000382 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439000383 metal binding site [ion binding]; metal-binding site 177439000384 active site 177439000385 I-site; other site 177439000386 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 177439000387 active site 177439000388 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 177439000389 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 177439000390 putative ATP binding site [chemical binding]; other site 177439000391 putative substrate interface [chemical binding]; other site 177439000392 serine/threonine transporter SstT; Provisional; Region: PRK13628 177439000393 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 177439000394 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177439000395 EamA-like transporter family; Region: EamA; pfam00892 177439000396 FeoA domain; Region: FeoA; pfam04023 177439000397 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 177439000398 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 177439000399 G1 box; other site 177439000400 GTP/Mg2+ binding site [chemical binding]; other site 177439000401 Switch I region; other site 177439000402 G2 box; other site 177439000403 G3 box; other site 177439000404 Switch II region; other site 177439000405 G4 box; other site 177439000406 G5 box; other site 177439000407 Nucleoside recognition; Region: Gate; pfam07670 177439000408 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 177439000409 Nucleoside recognition; Region: Gate; pfam07670 177439000410 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 177439000411 Cation efflux family; Region: Cation_efflux; pfam01545 177439000412 AAK_UMPK-MosAB: This CD includes the alpha and beta subunits of the Mo storage protein (MosA and MosB) which are related to uridine monophosphate kinase (UMPK) enzymes that catalyze the phosphorylation of UMP by ATP, yielding UDP, and playing a key role...; Region: AAK_UMPK-MosAB; cd04255 177439000413 putative nucleotide binding site [chemical binding]; other site 177439000414 putative substrate binding site [chemical binding]; other site 177439000415 PilZ domain; Region: PilZ; pfam07238 177439000416 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 177439000417 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 177439000418 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 177439000419 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 177439000420 dimer interface [polypeptide binding]; other site 177439000421 conserved gate region; other site 177439000422 putative PBP binding loops; other site 177439000423 ABC-ATPase subunit interface; other site 177439000424 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 177439000425 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 177439000426 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 177439000427 dimer interface [polypeptide binding]; other site 177439000428 conserved gate region; other site 177439000429 putative PBP binding loops; other site 177439000430 ABC-ATPase subunit interface; other site 177439000431 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 177439000432 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177439000433 Walker A/P-loop; other site 177439000434 ATP binding site [chemical binding]; other site 177439000435 Q-loop/lid; other site 177439000436 ABC transporter signature motif; other site 177439000437 Walker B; other site 177439000438 D-loop; other site 177439000439 H-loop/switch region; other site 177439000440 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 177439000441 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 177439000442 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177439000443 Walker A/P-loop; other site 177439000444 ATP binding site [chemical binding]; other site 177439000445 Q-loop/lid; other site 177439000446 ABC transporter signature motif; other site 177439000447 Walker B; other site 177439000448 D-loop; other site 177439000449 H-loop/switch region; other site 177439000450 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 177439000451 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 177439000452 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 177439000453 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 177439000454 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177439000455 HlyD family secretion protein; Region: HlyD_3; pfam13437 177439000456 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 177439000457 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 177439000458 putative substrate translocation pore; other site 177439000459 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 177439000460 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 177439000461 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 177439000462 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 177439000463 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 177439000464 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 177439000465 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 177439000466 dimerization interface [polypeptide binding]; other site 177439000467 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439000468 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439000469 dimer interface [polypeptide binding]; other site 177439000470 putative CheW interface [polypeptide binding]; other site 177439000471 putative transporter; Provisional; Region: PRK11660 177439000472 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 177439000473 Sulfate transporter family; Region: Sulfate_transp; pfam00916 177439000474 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 177439000475 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 177439000476 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 177439000477 active site 177439000478 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 177439000479 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 177439000480 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 177439000481 Ligand Binding Site [chemical binding]; other site 177439000482 7-cyano-7-deazaguanine reductase; Region: QueF; TIGR03138 177439000483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 177439000484 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 177439000485 DsrC like protein; Region: DsrC; cl01101 177439000486 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 177439000487 homodimer interface [polypeptide binding]; other site 177439000488 chemical substrate binding site [chemical binding]; other site 177439000489 oligomer interface [polypeptide binding]; other site 177439000490 metal binding site [ion binding]; metal-binding site 177439000491 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 177439000492 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 177439000493 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 177439000494 active site 177439000495 DNA binding site [nucleotide binding] 177439000496 Int/Topo IB signature motif; other site 177439000497 D5 N terminal like; Region: D5_N; smart00885 177439000498 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 177439000499 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 177439000500 CRISPR/Cas system-associated protein Cas3; Distinct Cas3 family with HD domain fused to C-termus of Helicase domain; Region: Cas3_I; cd09696 177439000501 CRISPR-associated helicase Cas3, subtype Dpsyc; Region: cas3_GSU0051; TIGR02621 177439000502 CRISPR/Cas system-associated protein Csb2; Region: Csb2_I-U; cd09734 177439000503 CRISPR/Cas system-associated protein Csb1; Region: Csb1_I-U; cd09738 177439000504 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 177439000505 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 177439000506 ring oligomerisation interface [polypeptide binding]; other site 177439000507 ATP/Mg binding site [chemical binding]; other site 177439000508 hinge regions; other site 177439000509 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 177439000510 oligomerisation interface [polypeptide binding]; other site 177439000511 mobile loop; other site 177439000512 roof hairpin; other site 177439000513 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 177439000514 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 177439000515 homodimer interface [polypeptide binding]; other site 177439000516 substrate-cofactor binding pocket; other site 177439000517 catalytic residue [active] 177439000518 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 177439000519 Rubrerythrin [Energy production and conversion]; Region: COG1592 177439000520 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 177439000521 binuclear metal center [ion binding]; other site 177439000522 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 177439000523 iron binding site [ion binding]; other site 177439000524 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 177439000525 DNA binding residues [nucleotide binding] 177439000526 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 177439000527 dimer interface [polypeptide binding]; other site 177439000528 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 177439000529 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 177439000530 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 177439000531 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 177439000532 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 177439000533 FeS/SAM binding site; other site 177439000534 EamA-like transporter family; Region: EamA; pfam00892 177439000535 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 177439000536 EamA-like transporter family; Region: EamA; pfam00892 177439000537 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 177439000538 heme-binding site [chemical binding]; other site 177439000539 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439000540 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439000541 metal binding site [ion binding]; metal-binding site 177439000542 active site 177439000543 I-site; other site 177439000544 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 177439000545 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 177439000546 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 177439000547 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 177439000548 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 177439000549 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 177439000550 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 177439000551 Walker A/P-loop; other site 177439000552 ATP binding site [chemical binding]; other site 177439000553 Q-loop/lid; other site 177439000554 ABC transporter signature motif; other site 177439000555 Walker B; other site 177439000556 D-loop; other site 177439000557 H-loop/switch region; other site 177439000558 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 177439000559 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 177439000560 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 177439000561 dimer interface [polypeptide binding]; other site 177439000562 conserved gate region; other site 177439000563 ABC-ATPase subunit interface; other site 177439000564 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 177439000565 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 177439000566 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 177439000567 MarR family; Region: MarR; pfam01047 177439000568 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 177439000569 Mechanosensitive ion channel; Region: MS_channel; pfam00924 177439000570 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 177439000571 active site 177439000572 SAM binding site [chemical binding]; other site 177439000573 homodimer interface [polypeptide binding]; other site 177439000574 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 177439000575 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 177439000576 active site 177439000577 C-terminal domain interface [polypeptide binding]; other site 177439000578 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 177439000579 active site 177439000580 N-terminal domain interface [polypeptide binding]; other site 177439000581 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 177439000582 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 177439000583 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 177439000584 ABC-ATPase subunit interface; other site 177439000585 dimer interface [polypeptide binding]; other site 177439000586 putative PBP binding regions; other site 177439000587 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 177439000588 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 177439000589 Walker A/P-loop; other site 177439000590 ATP binding site [chemical binding]; other site 177439000591 Q-loop/lid; other site 177439000592 ABC transporter signature motif; other site 177439000593 Walker B; other site 177439000594 D-loop; other site 177439000595 H-loop/switch region; other site 177439000596 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 177439000597 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 177439000598 intersubunit interface [polypeptide binding]; other site 177439000599 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 177439000600 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 177439000601 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 177439000602 catalytic triad [active] 177439000603 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 177439000604 Precorrin-8X methylmutase; Region: CbiC; pfam02570 177439000605 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 177439000606 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 177439000607 active site 177439000608 putative homodimer interface [polypeptide binding]; other site 177439000609 SAM binding site [chemical binding]; other site 177439000610 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 177439000611 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 177439000612 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 177439000613 active site 177439000614 SAM binding site [chemical binding]; other site 177439000615 homodimer interface [polypeptide binding]; other site 177439000616 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 177439000617 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 177439000618 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 177439000619 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 177439000620 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 177439000621 active site 177439000622 SAM binding site [chemical binding]; other site 177439000623 homodimer interface [polypeptide binding]; other site 177439000624 Sel1-like repeats; Region: SEL1; smart00671 177439000625 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 177439000626 Sel1-like repeats; Region: SEL1; smart00671 177439000627 Sel1-like repeats; Region: SEL1; smart00671 177439000628 Sel1-like repeats; Region: SEL1; smart00671 177439000629 Sel1-like repeats; Region: SEL1; smart00671 177439000630 Sel1-like repeats; Region: SEL1; smart00671 177439000631 Sel1-like repeats; Region: SEL1; smart00671 177439000632 Sel1-like repeats; Region: SEL1; smart00671 177439000633 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 177439000634 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177439000635 ligand binding site [chemical binding]; other site 177439000636 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 177439000637 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439000638 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439000639 metal binding site [ion binding]; metal-binding site 177439000640 active site 177439000641 I-site; other site 177439000642 calcium/proton exchanger (cax); Region: cax; TIGR00378 177439000643 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 177439000644 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 177439000645 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 177439000646 S1 domain; Region: S1_2; pfam13509 177439000647 S1 domain; Region: S1_2; pfam13509 177439000648 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 177439000649 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 177439000650 DNA-binding site [nucleotide binding]; DNA binding site 177439000651 RNA-binding motif; other site 177439000652 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 177439000653 UPF0489 domain; Region: UPF0489; pfam12640 177439000654 T5orf172 domain; Region: T5orf172; pfam10544 177439000655 gp58-like protein; Region: Gp58; pfam07902 177439000656 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 177439000657 active site 177439000658 NTP binding site [chemical binding]; other site 177439000659 metal binding triad [ion binding]; metal-binding site 177439000660 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 177439000661 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177439000662 Coenzyme A binding pocket [chemical binding]; other site 177439000663 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 177439000664 Autotransporter beta-domain; Region: Autotransporter; smart00869 177439000665 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 177439000666 Autotransporter beta-domain; Region: Autotransporter; smart00869 177439000667 PAS domain; Region: PAS; smart00091 177439000668 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 177439000669 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177439000670 acyl-activating enzyme (AAE) consensus motif; other site 177439000671 AMP binding site [chemical binding]; other site 177439000672 active site 177439000673 CoA binding site [chemical binding]; other site 177439000674 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 177439000675 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 177439000676 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 177439000677 active site 177439000678 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 177439000679 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 177439000680 substrate binding site [chemical binding]; other site 177439000681 oxyanion hole (OAH) forming residues; other site 177439000682 trimer interface [polypeptide binding]; other site 177439000683 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 177439000684 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 177439000685 dimer interface [polypeptide binding]; other site 177439000686 tetramer interface [polypeptide binding]; other site 177439000687 PYR/PP interface [polypeptide binding]; other site 177439000688 TPP binding site [chemical binding]; other site 177439000689 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 177439000690 TPP-binding site; other site 177439000691 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 177439000692 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 177439000693 CoenzymeA binding site [chemical binding]; other site 177439000694 subunit interaction site [polypeptide binding]; other site 177439000695 PHB binding site; other site 177439000696 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 177439000697 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 177439000698 substrate binding site; other site 177439000699 dimer interface; other site 177439000700 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 177439000701 homotrimer interaction site [polypeptide binding]; other site 177439000702 zinc binding site [ion binding]; other site 177439000703 CDP-binding sites; other site 177439000704 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 177439000705 peptidase T-like protein; Region: PepT-like; TIGR01883 177439000706 metal binding site [ion binding]; metal-binding site 177439000707 putative dimer interface [polypeptide binding]; other site 177439000708 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 177439000709 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 177439000710 active site 177439000711 tetramer interface [polypeptide binding]; other site 177439000712 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177439000713 active site 177439000714 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 177439000715 active site 177439000716 phosphorylation site [posttranslational modification] 177439000717 intermolecular recognition site; other site 177439000718 dimerization interface [polypeptide binding]; other site 177439000719 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439000720 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439000721 metal binding site [ion binding]; metal-binding site 177439000722 I-site; other site 177439000723 active site 177439000724 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 177439000725 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 177439000726 XdhC Rossmann domain; Region: XdhC_C; pfam13478 177439000727 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177439000728 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 177439000729 acyl-activating enzyme (AAE) consensus motif; other site 177439000730 active site 177439000731 AMP binding site [chemical binding]; other site 177439000732 CoA binding site [chemical binding]; other site 177439000733 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 177439000734 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 177439000735 FeS/SAM binding site; other site 177439000736 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 177439000737 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 177439000738 S-adenosylmethionine binding site [chemical binding]; other site 177439000739 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177439000740 Cysteine-rich domain; Region: CCG; pfam02754 177439000741 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 177439000742 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 177439000743 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 177439000744 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 177439000745 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 177439000746 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 177439000747 putative MPT binding site; other site 177439000748 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 177439000749 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177439000750 Predicted membrane protein [Function unknown]; Region: COG1238 177439000751 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 177439000752 Methyltransferase domain; Region: Methyltransf_18; pfam12847 177439000753 heat shock protein 90; Provisional; Region: PRK05218 177439000754 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 177439000755 ATP binding site [chemical binding]; other site 177439000756 Mg2+ binding site [ion binding]; other site 177439000757 G-X-G motif; other site 177439000758 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 177439000759 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177439000760 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 177439000761 DnaA N-terminal domain; Region: DnaA_N; pfam11638 177439000762 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 177439000763 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 177439000764 Walker A motif; other site 177439000765 ATP binding site [chemical binding]; other site 177439000766 Walker B motif; other site 177439000767 arginine finger; other site 177439000768 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 177439000769 DnaA box-binding interface [nucleotide binding]; other site 177439000770 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 177439000771 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177439000772 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 177439000773 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177439000774 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177439000775 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177439000776 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177439000777 Surface antigen; Region: Bac_surface_Ag; pfam01103 177439000778 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 177439000779 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 177439000780 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 177439000781 ATP binding site [chemical binding]; other site 177439000782 putative Mg++ binding site [ion binding]; other site 177439000783 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 177439000784 nucleotide binding region [chemical binding]; other site 177439000785 ATP-binding site [chemical binding]; other site 177439000786 TRCF domain; Region: TRCF; pfam03461 177439000787 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 177439000788 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 177439000789 motif II; other site 177439000790 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 177439000791 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 177439000792 CoA-ligase; Region: Ligase_CoA; pfam00549 177439000793 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 177439000794 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 177439000795 active site 177439000796 catalytic site [active] 177439000797 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 177439000798 CoA binding domain; Region: CoA_binding; smart00881 177439000799 CoA-ligase; Region: Ligase_CoA; pfam00549 177439000800 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 177439000801 Sulfate transporter family; Region: Sulfate_transp; pfam00916 177439000802 TSCPD domain; Region: TSCPD; cl14834 177439000803 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177439000804 EamA-like transporter family; Region: EamA; pfam00892 177439000805 EamA-like transporter family; Region: EamA; pfam00892 177439000806 DNA-specific endonuclease I; Provisional; Region: PRK15137 177439000807 Endonuclease I; Region: Endonuclease_1; pfam04231 177439000808 CHASE3 domain; Region: CHASE3; pfam05227 177439000809 CHASE3 domain; Region: CHASE3; pfam05227 177439000810 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 177439000811 dimerization interface [polypeptide binding]; other site 177439000812 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439000813 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439000814 dimer interface [polypeptide binding]; other site 177439000815 putative CheW interface [polypeptide binding]; other site 177439000816 Transcriptional regulator [Transcription]; Region: LysR; COG0583 177439000817 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177439000818 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 177439000819 putative dimerization interface [polypeptide binding]; other site 177439000820 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 177439000821 lipoyl synthase; Provisional; Region: PRK05481 177439000822 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 177439000823 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 177439000824 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177439000825 catalytic residue [active] 177439000826 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 177439000827 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 177439000828 tetramer interface [polypeptide binding]; other site 177439000829 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439000830 catalytic residue [active] 177439000831 glycine cleavage system protein H; Provisional; Region: PRK13380 177439000832 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 177439000833 lipoyl attachment site [posttranslational modification]; other site 177439000834 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 177439000835 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 177439000836 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 177439000837 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 177439000838 putative DNA binding site [nucleotide binding]; other site 177439000839 putative Zn2+ binding site [ion binding]; other site 177439000840 AsnC family; Region: AsnC_trans_reg; pfam01037 177439000841 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 177439000842 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 177439000843 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177439000844 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 177439000845 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 177439000846 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 177439000847 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 177439000848 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 177439000849 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 177439000850 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 177439000851 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 177439000852 Soluble P-type ATPase [General function prediction only]; Region: COG4087 177439000853 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 177439000854 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 177439000855 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 177439000856 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177439000857 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 177439000858 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 177439000859 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 177439000860 folate binding site [chemical binding]; other site 177439000861 NADP+ binding site [chemical binding]; other site 177439000862 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 177439000863 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439000864 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439000865 metal binding site [ion binding]; metal-binding site 177439000866 active site 177439000867 I-site; other site 177439000868 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 177439000869 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 177439000870 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 177439000871 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 177439000872 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 177439000873 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439000874 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 177439000875 Walker A/P-loop; other site 177439000876 ATP binding site [chemical binding]; other site 177439000877 Q-loop/lid; other site 177439000878 ABC transporter signature motif; other site 177439000879 Walker B; other site 177439000880 D-loop; other site 177439000881 H-loop/switch region; other site 177439000882 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 177439000883 HD domain; Region: HD_4; pfam13328 177439000884 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 177439000885 putative PBP binding loops; other site 177439000886 ABC-ATPase subunit interface; other site 177439000887 hypothetical protein; Provisional; Region: PRK11622 177439000888 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 177439000889 Ion channel; Region: Ion_trans_2; pfam07885 177439000890 TrkA-N domain; Region: TrkA_N; pfam02254 177439000891 TrkA-N domain; Region: TrkA_N; pfam02254 177439000892 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 177439000893 TrkA-C domain; Region: TrkA_C; pfam02080 177439000894 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 177439000895 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 177439000896 Nitrogen regulatory protein P-II; Region: P-II; smart00938 177439000897 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 177439000898 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 177439000899 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177439000900 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 177439000901 Walker A/P-loop; other site 177439000902 ATP binding site [chemical binding]; other site 177439000903 Q-loop/lid; other site 177439000904 ABC transporter signature motif; other site 177439000905 Walker B; other site 177439000906 D-loop; other site 177439000907 H-loop/switch region; other site 177439000908 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 177439000909 dimer interface [polypeptide binding]; other site 177439000910 conserved gate region; other site 177439000911 putative PBP binding loops; other site 177439000912 ABC-ATPase subunit interface; other site 177439000913 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 177439000914 PBP superfamily domain; Region: PBP_like_2; pfam12849 177439000915 Helix-turn-helix domain; Region: HTH_17; pfam12728 177439000916 PBP superfamily domain; Region: PBP_like; pfam12727 177439000917 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 177439000918 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 177439000919 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 177439000920 active site 177439000921 catalytic site [active] 177439000922 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 177439000923 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 177439000924 putative acyl-acceptor binding pocket; other site 177439000925 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 177439000926 PAS domain; Region: PAS_9; pfam13426 177439000927 putative active site [active] 177439000928 heme pocket [chemical binding]; other site 177439000929 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 177439000930 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 177439000931 Walker A motif; other site 177439000932 ATP binding site [chemical binding]; other site 177439000933 Walker B motif; other site 177439000934 arginine finger; other site 177439000935 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177439000936 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 177439000937 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 177439000938 Ferredoxin [Energy production and conversion]; Region: COG1146 177439000939 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 177439000940 switch II; other site 177439000941 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 177439000942 Ferredoxin [Energy production and conversion]; Region: COG1146 177439000943 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 177439000944 switch II; other site 177439000945 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 177439000946 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 177439000947 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 177439000948 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 177439000949 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 177439000950 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 177439000951 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439000952 ABC transporter signature motif; other site 177439000953 Walker B; other site 177439000954 D-loop; other site 177439000955 H-loop/switch region; other site 177439000956 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 177439000957 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439000958 Walker A/P-loop; other site 177439000959 ATP binding site [chemical binding]; other site 177439000960 Q-loop/lid; other site 177439000961 ABC transporter signature motif; other site 177439000962 Walker B; other site 177439000963 D-loop; other site 177439000964 H-loop/switch region; other site 177439000965 Uncharacterized conserved protein [Function unknown]; Region: COG1359 177439000966 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 177439000967 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 177439000968 Nitrogen regulatory protein P-II; Region: P-II; smart00938 177439000969 FOG: CBS domain [General function prediction only]; Region: COG0517 177439000970 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_17; cd04630 177439000971 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 177439000972 Aspartase; Region: Aspartase; cd01357 177439000973 active sites [active] 177439000974 tetramer interface [polypeptide binding]; other site 177439000975 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 177439000976 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 177439000977 PAS domain S-box; Region: sensory_box; TIGR00229 177439000978 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 177439000979 putative active site [active] 177439000980 heme pocket [chemical binding]; other site 177439000981 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 177439000982 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 177439000983 Walker A motif; other site 177439000984 ATP binding site [chemical binding]; other site 177439000985 Walker B motif; other site 177439000986 arginine finger; other site 177439000987 Predicted permease; Region: DUF318; cl17795 177439000988 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177439000989 Protein of unknown function (DUF328); Region: DUF328; pfam03883 177439000990 PAS domain; Region: PAS_9; pfam13426 177439000991 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 177439000992 dimer interface [polypeptide binding]; other site 177439000993 phosphorylation site [posttranslational modification] 177439000994 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 177439000995 ATP binding site [chemical binding]; other site 177439000996 Mg2+ binding site [ion binding]; other site 177439000997 G-X-G motif; other site 177439000998 Response regulator receiver domain; Region: Response_reg; pfam00072 177439000999 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 177439001000 active site 177439001001 phosphorylation site [posttranslational modification] 177439001002 intermolecular recognition site; other site 177439001003 dimerization interface [polypeptide binding]; other site 177439001004 Fic family protein [Function unknown]; Region: COG3177 177439001005 Fic/DOC family; Region: Fic; pfam02661 177439001006 translation initiation factor Sui1; Validated; Region: PRK06824 177439001007 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 177439001008 putative rRNA binding site [nucleotide binding]; other site 177439001009 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 177439001010 DNA-binding site [nucleotide binding]; DNA binding site 177439001011 RNA-binding motif; other site 177439001012 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 177439001013 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439001014 Zn2+ binding site [ion binding]; other site 177439001015 Mg2+ binding site [ion binding]; other site 177439001016 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 177439001017 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439001018 Zn2+ binding site [ion binding]; other site 177439001019 Mg2+ binding site [ion binding]; other site 177439001020 Protein of unknown function (DUF3955); Region: DUF3955; pfam13127 177439001021 TPR repeat; Region: TPR_11; pfam13414 177439001022 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 177439001023 binding surface 177439001024 TPR motif; other site 177439001025 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177439001026 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 177439001027 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 177439001028 dimerization interface [polypeptide binding]; other site 177439001029 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 177439001030 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 177439001031 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 177439001032 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 177439001033 HlyD family secretion protein; Region: HlyD_3; pfam13437 177439001034 Outer membrane efflux protein; Region: OEP; pfam02321 177439001035 Outer membrane efflux protein; Region: OEP; pfam02321 177439001036 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177439001037 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 177439001038 dimer interface [polypeptide binding]; other site 177439001039 phosphorylation site [posttranslational modification] 177439001040 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 177439001041 ATP binding site [chemical binding]; other site 177439001042 Mg2+ binding site [ion binding]; other site 177439001043 G-X-G motif; other site 177439001044 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177439001045 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 177439001046 active site 177439001047 phosphorylation site [posttranslational modification] 177439001048 intermolecular recognition site; other site 177439001049 dimerization interface [polypeptide binding]; other site 177439001050 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 177439001051 Walker A motif; other site 177439001052 ATP binding site [chemical binding]; other site 177439001053 Walker B motif; other site 177439001054 arginine finger; other site 177439001055 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177439001056 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 177439001057 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 177439001058 putative ligand binding site [chemical binding]; other site 177439001059 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 177439001060 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439001061 Walker A/P-loop; other site 177439001062 ATP binding site [chemical binding]; other site 177439001063 Q-loop/lid; other site 177439001064 ABC transporter signature motif; other site 177439001065 Walker B; other site 177439001066 D-loop; other site 177439001067 H-loop/switch region; other site 177439001068 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 177439001069 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177439001070 TM-ABC transporter signature motif; other site 177439001071 lysine biosynthesis protein LysW; Region: lysW; TIGR01206 177439001072 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 177439001073 Ligand Binding Site [chemical binding]; other site 177439001074 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177439001075 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 177439001076 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 177439001077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439001078 catalytic residue [active] 177439001079 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 177439001080 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 177439001081 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 177439001082 TIGR02646 family protein; Region: TIGR02646 177439001083 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 177439001084 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439001085 Walker A/P-loop; other site 177439001086 ATP binding site [chemical binding]; other site 177439001087 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 177439001088 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 177439001089 Serine hydrolase; Region: Ser_hydrolase; cl17834 177439001090 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 177439001091 CHASE4 domain; Region: CHASE4; pfam05228 177439001092 PAS domain S-box; Region: sensory_box; TIGR00229 177439001093 PAS domain; Region: PAS; smart00091 177439001094 putative active site [active] 177439001095 heme pocket [chemical binding]; other site 177439001096 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 177439001097 ATP binding site [chemical binding]; other site 177439001098 Mg2+ binding site [ion binding]; other site 177439001099 G-X-G motif; other site 177439001100 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 177439001101 dimer interface [polypeptide binding]; other site 177439001102 Citrate synthase; Region: Citrate_synt; pfam00285 177439001103 active site 177439001104 citrylCoA binding site [chemical binding]; other site 177439001105 NADH binding [chemical binding]; other site 177439001106 cationic pore residues; other site 177439001107 oxalacetate/citrate binding site [chemical binding]; other site 177439001108 coenzyme A binding site [chemical binding]; other site 177439001109 catalytic triad [active] 177439001110 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 177439001111 Lipocalin-like; Region: Lipocalin_3; pfam12702 177439001112 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 177439001113 Protein of unknown function; Region: DUF3658; pfam12395 177439001114 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 177439001115 AAA domain; Region: AAA_23; pfam13476 177439001116 AAA domain; Region: AAA_21; pfam13304 177439001117 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439001118 ABC transporter signature motif; other site 177439001119 Walker B; other site 177439001120 D-loop; other site 177439001121 H-loop/switch region; other site 177439001122 Uncharacterized conserved protein [Function unknown]; Region: COG4127 177439001123 HEAT repeats; Region: HEAT_2; pfam13646 177439001124 DEAD-like helicases superfamily; Region: DEXDc; smart00487 177439001125 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 177439001126 ATP binding site [chemical binding]; other site 177439001127 putative Mg++ binding site [ion binding]; other site 177439001128 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 177439001129 nucleotide binding region [chemical binding]; other site 177439001130 ATP-binding site [chemical binding]; other site 177439001131 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177439001132 active site 177439001133 DNA protecting protein DprA; Region: dprA; TIGR00732 177439001134 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 177439001135 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 177439001136 HicB family; Region: HicB; pfam05534 177439001137 YcfA-like protein; Region: YcfA; cl00752 177439001138 multiple promoter invertase; Provisional; Region: mpi; PRK13413 177439001139 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 177439001140 catalytic residues [active] 177439001141 catalytic nucleophile [active] 177439001142 Presynaptic Site I dimer interface [polypeptide binding]; other site 177439001143 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 177439001144 Synaptic Flat tetramer interface [polypeptide binding]; other site 177439001145 Synaptic Site I dimer interface [polypeptide binding]; other site 177439001146 DNA binding site [nucleotide binding] 177439001147 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 177439001148 DNA-binding interface [nucleotide binding]; DNA binding site 177439001149 Uncharacterized conserved protein (DUF2290); Region: DUF2290; pfam10053 177439001150 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 177439001151 Family description; Region: UvrD_C_2; pfam13538 177439001152 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 177439001153 active site 177439001154 metal binding site [ion binding]; metal-binding site 177439001155 interdomain interaction site; other site 177439001156 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 177439001157 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 177439001158 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 177439001159 active site 177439001160 Int/Topo IB signature motif; other site 177439001161 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 177439001162 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 177439001163 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 177439001164 N-acetyl-D-glucosamine binding site [chemical binding]; other site 177439001165 catalytic residue [active] 177439001166 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 177439001167 active site 177439001168 intersubunit interactions; other site 177439001169 catalytic residue [active] 177439001170 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 177439001171 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 177439001172 catalytic center binding site [active] 177439001173 ATP binding site [chemical binding]; other site 177439001174 dihydrodipicolinate reductase; Provisional; Region: PRK00048 177439001175 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 177439001176 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 177439001177 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 177439001178 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 177439001179 dimer interface [polypeptide binding]; other site 177439001180 active site 177439001181 catalytic residue [active] 177439001182 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 177439001183 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 177439001184 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 177439001185 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; cl00065 177439001186 argininosuccinate lyase; Provisional; Region: PRK00855 177439001187 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 177439001188 active sites [active] 177439001189 tetramer interface [polypeptide binding]; other site 177439001190 argininosuccinate synthase; Provisional; Region: PRK13820 177439001191 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 177439001192 ANP binding site [chemical binding]; other site 177439001193 Substrate Binding Site II [chemical binding]; other site 177439001194 Substrate Binding Site I [chemical binding]; other site 177439001195 ornithine carbamoyltransferase; Provisional; Region: PRK00779 177439001196 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 177439001197 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 177439001198 acetylornithine aminotransferase; Provisional; Region: PRK02627 177439001199 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 177439001200 inhibitor-cofactor binding pocket; inhibition site 177439001201 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439001202 catalytic residue [active] 177439001203 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 177439001204 feedback inhibition sensing region; other site 177439001205 homohexameric interface [polypeptide binding]; other site 177439001206 nucleotide binding site [chemical binding]; other site 177439001207 N-acetyl-L-glutamate binding site [chemical binding]; other site 177439001208 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 177439001209 OstA-like protein; Region: OstA; pfam03968 177439001210 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 177439001211 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 177439001212 Walker A/P-loop; other site 177439001213 ATP binding site [chemical binding]; other site 177439001214 Q-loop/lid; other site 177439001215 ABC transporter signature motif; other site 177439001216 Walker B; other site 177439001217 D-loop; other site 177439001218 H-loop/switch region; other site 177439001219 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 177439001220 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 177439001221 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 177439001222 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 177439001223 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177439001224 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177439001225 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 177439001226 DctM-like transporters; Region: DctM; pfam06808 177439001227 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 177439001228 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 177439001229 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 177439001230 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 177439001231 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177439001232 active site 177439001233 aspartate kinase; Validated; Region: PRK09181 177439001234 AAK_AK-Ectoine: Amino Acid Kinase Superfamily (AAK), AK-Ectoine; this CD includes the N-terminal catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium...; Region: AAK_AK-Ectoine; cd04248 177439001235 putative catalytic residues [active] 177439001236 putative nucleotide binding site [chemical binding]; other site 177439001237 putative aspartate binding site [chemical binding]; other site 177439001238 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 177439001239 allosteric regulatory residue; other site 177439001240 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_2; cd04915 177439001241 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 177439001242 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 177439001243 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 177439001244 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 177439001245 metal binding site [ion binding]; metal-binding site 177439001246 dimer interface [polypeptide binding]; other site 177439001247 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439001248 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 177439001249 Walker A/P-loop; other site 177439001250 ATP binding site [chemical binding]; other site 177439001251 Q-loop/lid; other site 177439001252 ABC transporter signature motif; other site 177439001253 Walker B; other site 177439001254 D-loop; other site 177439001255 H-loop/switch region; other site 177439001256 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 177439001257 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 177439001258 dimer interface [polypeptide binding]; other site 177439001259 conserved gate region; other site 177439001260 putative PBP binding loops; other site 177439001261 ABC-ATPase subunit interface; other site 177439001262 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 177439001263 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 177439001264 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 177439001265 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 177439001266 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 177439001267 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 177439001268 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 177439001269 RNA binding surface [nucleotide binding]; other site 177439001270 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 177439001271 active site 177439001272 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 177439001273 Na binding site [ion binding]; other site 177439001274 Protein of unknown function (DUF997); Region: DUF997; cl01614 177439001275 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439001276 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439001277 metal binding site [ion binding]; metal-binding site 177439001278 active site 177439001279 I-site; other site 177439001280 Uncharacterized conserved protein [Function unknown]; Region: COG2014 177439001281 Domain of unknown function (DUF364); Region: DUF364; pfam04016 177439001282 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 177439001283 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 177439001284 dimer interface [polypeptide binding]; other site 177439001285 conserved gate region; other site 177439001286 putative PBP binding loops; other site 177439001287 ABC-ATPase subunit interface; other site 177439001288 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 177439001289 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 177439001290 ATP-binding cassette domain of the molybdenum transport system; Region: ABC_ModC_molybdenum_transporter; cd03297 177439001291 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 177439001292 Walker A/P-loop; other site 177439001293 ATP binding site [chemical binding]; other site 177439001294 Q-loop/lid; other site 177439001295 ABC transporter signature motif; other site 177439001296 Walker B; other site 177439001297 D-loop; other site 177439001298 H-loop/switch region; other site 177439001299 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 177439001300 dimerization interface [polypeptide binding]; other site 177439001301 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439001302 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439001303 dimer interface [polypeptide binding]; other site 177439001304 putative CheW interface [polypeptide binding]; other site 177439001305 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177439001306 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 177439001307 ATP binding site [chemical binding]; other site 177439001308 Mg2+ binding site [ion binding]; other site 177439001309 G-X-G motif; other site 177439001310 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 177439001311 Response regulator receiver domain; Region: Response_reg; pfam00072 177439001312 active site 177439001313 phosphorylation site [posttranslational modification] 177439001314 intermolecular recognition site; other site 177439001315 dimerization interface [polypeptide binding]; other site 177439001316 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177439001317 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 177439001318 active site 177439001319 phosphorylation site [posttranslational modification] 177439001320 intermolecular recognition site; other site 177439001321 dimerization interface [polypeptide binding]; other site 177439001322 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 177439001323 Walker A motif; other site 177439001324 ATP binding site [chemical binding]; other site 177439001325 Walker B motif; other site 177439001326 arginine finger; other site 177439001327 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 177439001328 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 177439001329 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 177439001330 G1 box; other site 177439001331 GTP/Mg2+ binding site [chemical binding]; other site 177439001332 Switch I region; other site 177439001333 G2 box; other site 177439001334 Switch II region; other site 177439001335 G3 box; other site 177439001336 G4 box; other site 177439001337 G5 box; other site 177439001338 biotin synthase; Provisional; Region: PRK07094 177439001339 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 177439001340 FeS/SAM binding site; other site 177439001341 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 177439001342 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 177439001343 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 177439001344 FeS/SAM binding site; other site 177439001345 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 177439001346 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 177439001347 PAS domain; Region: PAS_9; pfam13426 177439001348 putative active site [active] 177439001349 heme pocket [chemical binding]; other site 177439001350 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 177439001351 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 177439001352 Walker A motif; other site 177439001353 ATP binding site [chemical binding]; other site 177439001354 Walker B motif; other site 177439001355 arginine finger; other site 177439001356 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177439001357 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 177439001358 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177439001359 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 177439001360 4Fe-4S binding domain; Region: Fer4; pfam00037 177439001361 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 177439001362 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 177439001363 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 177439001364 4Fe-4S binding domain; Region: Fer4; pfam00037 177439001365 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 177439001366 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 177439001367 [4Fe-4S] binding site [ion binding]; other site 177439001368 molybdopterin cofactor binding site; other site 177439001369 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 177439001370 molybdopterin cofactor binding site; other site 177439001371 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 177439001372 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 177439001373 Walker B motif; other site 177439001374 arginine finger; other site 177439001375 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 177439001376 DNA-binding interface [nucleotide binding]; DNA binding site 177439001377 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177439001378 DctM-like transporters; Region: DctM; pfam06808 177439001379 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 177439001380 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 177439001381 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177439001382 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177439001383 DctM-like transporters; Region: DctM; pfam06808 177439001384 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 177439001385 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 177439001386 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 177439001387 homotrimer interaction site [polypeptide binding]; other site 177439001388 putative active site [active] 177439001389 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 177439001390 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 177439001391 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 177439001392 hydroxyglutarate oxidase; Provisional; Region: PRK11728 177439001393 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177439001394 SprT-like family; Region: SprT-like; pfam10263 177439001395 Cache domain; Region: Cache_1; pfam02743 177439001396 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 177439001397 dimerization interface [polypeptide binding]; other site 177439001398 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439001399 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439001400 dimer interface [polypeptide binding]; other site 177439001401 putative CheW interface [polypeptide binding]; other site 177439001402 Methyltransferase domain; Region: Methyltransf_23; pfam13489 177439001403 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 177439001404 S-adenosylmethionine binding site [chemical binding]; other site 177439001405 AIR synthase (PurM) related protein, subgroup 1 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like1; cd06061 177439001406 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 177439001407 dimerization interface [polypeptide binding]; other site 177439001408 putative ATP binding site [chemical binding]; other site 177439001409 Domain of unknown function DUF77; Region: DUF77; pfam01910 177439001410 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 177439001411 substrate binding site [chemical binding]; other site 177439001412 multimerization interface [polypeptide binding]; other site 177439001413 ATP binding site [chemical binding]; other site 177439001414 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 177439001415 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 177439001416 Walker A/P-loop; other site 177439001417 ATP binding site [chemical binding]; other site 177439001418 Q-loop/lid; other site 177439001419 ABC transporter signature motif; other site 177439001420 Walker B; other site 177439001421 D-loop; other site 177439001422 H-loop/switch region; other site 177439001423 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 177439001424 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 177439001425 dimer interface [polypeptide binding]; other site 177439001426 conserved gate region; other site 177439001427 putative PBP binding loops; other site 177439001428 ABC-ATPase subunit interface; other site 177439001429 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 177439001430 NMT1/THI5 like; Region: NMT1; pfam09084 177439001431 Protein of unknown function, DUF547; Region: DUF547; pfam04784 177439001432 Uncharacterized conserved protein [Function unknown]; Region: COG0398 177439001433 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 177439001434 mercuric reductase; Validated; Region: PRK06370 177439001435 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 177439001436 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177439001437 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 177439001438 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 177439001439 iron binding site [ion binding]; other site 177439001440 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 177439001441 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 177439001442 active site 177439001443 FMN binding site [chemical binding]; other site 177439001444 substrate binding site [chemical binding]; other site 177439001445 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 177439001446 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 177439001447 iron binding site [ion binding]; other site 177439001448 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 177439001449 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 177439001450 active site 177439001451 FMN binding site [chemical binding]; other site 177439001452 substrate binding site [chemical binding]; other site 177439001453 3Fe-4S cluster binding site [ion binding]; other site 177439001454 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 177439001455 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 177439001456 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 177439001457 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 177439001458 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 177439001459 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 177439001460 Walker A/P-loop; other site 177439001461 ATP binding site [chemical binding]; other site 177439001462 Q-loop/lid; other site 177439001463 ABC transporter signature motif; other site 177439001464 Walker B; other site 177439001465 D-loop; other site 177439001466 H-loop/switch region; other site 177439001467 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 177439001468 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177439001469 HlyD family secretion protein; Region: HlyD_3; pfam13437 177439001470 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 177439001471 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 177439001472 DNA binding residues [nucleotide binding] 177439001473 dimerization interface [polypeptide binding]; other site 177439001474 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 177439001475 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 177439001476 metal ion-dependent adhesion site (MIDAS); other site 177439001477 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439001478 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439001479 metal binding site [ion binding]; metal-binding site 177439001480 active site 177439001481 I-site; other site 177439001482 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 177439001483 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 177439001484 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b1; cd09203 177439001485 PLD-like domain; Region: PLDc_2; pfam13091 177439001486 putative homodimer interface [polypeptide binding]; other site 177439001487 putative active site [active] 177439001488 catalytic site [active] 177439001489 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 177439001490 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 177439001491 ATP binding site [chemical binding]; other site 177439001492 putative Mg++ binding site [ion binding]; other site 177439001493 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 177439001494 nucleotide binding region [chemical binding]; other site 177439001495 ATP-binding site [chemical binding]; other site 177439001496 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 177439001497 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 177439001498 SmpB-tmRNA interface; other site 177439001499 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 177439001500 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 177439001501 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 177439001502 Walker A motif; other site 177439001503 ATP binding site [chemical binding]; other site 177439001504 Walker B motif; other site 177439001505 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 177439001506 TPR repeat; Region: TPR_11; pfam13414 177439001507 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 177439001508 TPR motif; other site 177439001509 binding surface 177439001510 exonuclease subunit SbcC; Provisional; Region: PRK10246 177439001511 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 177439001512 Walker A/P-loop; other site 177439001513 ATP binding site [chemical binding]; other site 177439001514 Q-loop/lid; other site 177439001515 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439001516 ABC transporter signature motif; other site 177439001517 Walker B; other site 177439001518 D-loop; other site 177439001519 H-loop/switch region; other site 177439001520 exonuclease subunit SbcD; Provisional; Region: PRK10966 177439001521 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 177439001522 active site 177439001523 metal binding site [ion binding]; metal-binding site 177439001524 DNA binding site [nucleotide binding] 177439001525 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 177439001526 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 177439001527 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 177439001528 S-ribosylhomocysteinase; Provisional; Region: PRK02260 177439001529 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 177439001530 catalytic residues [active] 177439001531 dimer interface [polypeptide binding]; other site 177439001532 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 177439001533 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 177439001534 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 177439001535 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 177439001536 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 177439001537 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 177439001538 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 177439001539 PAS fold; Region: PAS_4; pfam08448 177439001540 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 177439001541 putative active site [active] 177439001542 heme pocket [chemical binding]; other site 177439001543 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177439001544 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 177439001545 Walker A motif; other site 177439001546 ATP binding site [chemical binding]; other site 177439001547 Walker B motif; other site 177439001548 arginine finger; other site 177439001549 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 177439001550 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 177439001551 hexamer interface [polypeptide binding]; other site 177439001552 ligand binding site [chemical binding]; other site 177439001553 putative active site [active] 177439001554 NAD(P) binding site [chemical binding]; other site 177439001555 aminotransferase; Validated; Region: PRK07678 177439001556 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 177439001557 inhibitor-cofactor binding pocket; inhibition site 177439001558 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439001559 catalytic residue [active] 177439001560 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 177439001561 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 177439001562 active site 177439001563 metal binding site [ion binding]; metal-binding site 177439001564 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 177439001565 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 177439001566 hexamer interface [polypeptide binding]; other site 177439001567 ligand binding site [chemical binding]; other site 177439001568 putative active site [active] 177439001569 NAD(P) binding site [chemical binding]; other site 177439001570 aminotransferase; Validated; Region: PRK07678 177439001571 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 177439001572 inhibitor-cofactor binding pocket; inhibition site 177439001573 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439001574 catalytic residue [active] 177439001575 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 177439001576 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 177439001577 active site 177439001578 metal binding site [ion binding]; metal-binding site 177439001579 amino acid transporter; Region: 2A0306; TIGR00909 177439001580 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 177439001581 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 177439001582 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 177439001583 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 177439001584 active site residue [active] 177439001585 Flagellin N-methylase; Region: FliB; pfam03692 177439001586 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177439001587 EamA-like transporter family; Region: EamA; pfam00892 177439001588 EamA-like transporter family; Region: EamA; pfam00892 177439001589 Cupin domain; Region: Cupin_2; pfam07883 177439001590 AMP-binding domain protein; Validated; Region: PRK08315 177439001591 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177439001592 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 177439001593 acyl-activating enzyme (AAE) consensus motif; other site 177439001594 putative AMP binding site [chemical binding]; other site 177439001595 putative active site [active] 177439001596 putative CoA binding site [chemical binding]; other site 177439001597 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 177439001598 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 177439001599 Protein of unknown function (DUF401); Region: DUF401; cl00830 177439001600 phosphate acetyltransferase; Reviewed; Region: PRK05632 177439001601 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 177439001602 DRTGG domain; Region: DRTGG; pfam07085 177439001603 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 177439001604 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 177439001605 propionate/acetate kinase; Provisional; Region: PRK12379 177439001606 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 177439001607 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 177439001608 dimerization interface [polypeptide binding]; other site 177439001609 domain crossover interface; other site 177439001610 redox-dependent activation switch; other site 177439001611 molybdate ABC transporter periplasmic substrate-binding protein; Provisional; Region: PRK04168 177439001612 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 177439001613 sulfate transport protein; Provisional; Region: cysT; CHL00187 177439001614 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 177439001615 dimer interface [polypeptide binding]; other site 177439001616 conserved gate region; other site 177439001617 putative PBP binding loops; other site 177439001618 ABC-ATPase subunit interface; other site 177439001619 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 177439001620 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439001621 Walker A/P-loop; other site 177439001622 ATP binding site [chemical binding]; other site 177439001623 Q-loop/lid; other site 177439001624 ABC transporter signature motif; other site 177439001625 Walker B; other site 177439001626 D-loop; other site 177439001627 H-loop/switch region; other site 177439001628 TOBE domain; Region: TOBE_2; pfam08402 177439001629 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177439001630 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 177439001631 putative substrate translocation pore; other site 177439001632 competence damage-inducible protein A; Provisional; Region: PRK01215 177439001633 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 177439001634 putative MPT binding site; other site 177439001635 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 177439001636 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 177439001637 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 177439001638 dimerization interface [polypeptide binding]; other site 177439001639 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439001640 dimer interface [polypeptide binding]; other site 177439001641 putative CheW interface [polypeptide binding]; other site 177439001642 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 177439001643 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 177439001644 dimer interface [polypeptide binding]; other site 177439001645 anticodon binding site; other site 177439001646 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 177439001647 homodimer interface [polypeptide binding]; other site 177439001648 motif 1; other site 177439001649 active site 177439001650 motif 2; other site 177439001651 GAD domain; Region: GAD; pfam02938 177439001652 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 177439001653 motif 3; other site 177439001654 histidyl-tRNA synthetase; Region: hisS; TIGR00442 177439001655 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 177439001656 dimer interface [polypeptide binding]; other site 177439001657 motif 1; other site 177439001658 active site 177439001659 motif 2; other site 177439001660 motif 3; other site 177439001661 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 177439001662 anticodon binding site; other site 177439001663 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 177439001664 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 177439001665 FMN binding site [chemical binding]; other site 177439001666 substrate binding site [chemical binding]; other site 177439001667 putative catalytic residue [active] 177439001668 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 177439001669 active site 177439001670 NTP binding site [chemical binding]; other site 177439001671 metal binding triad [ion binding]; metal-binding site 177439001672 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 177439001673 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 177439001674 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 177439001675 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 177439001676 hydrogenase 2 large subunit; Provisional; Region: PRK10467 177439001677 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 177439001678 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 177439001679 Acylphosphatase; Region: Acylphosphatase; pfam00708 177439001680 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 177439001681 HypF finger; Region: zf-HYPF; pfam07503 177439001682 HypF finger; Region: zf-HYPF; pfam07503 177439001683 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 177439001684 HupF/HypC family; Region: HupF_HypC; pfam01455 177439001685 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 177439001686 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 177439001687 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 177439001688 dimerization interface [polypeptide binding]; other site 177439001689 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 177439001690 ATP binding site [chemical binding]; other site 177439001691 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 177439001692 putative substrate-binding site; other site 177439001693 nickel binding site [ion binding]; other site 177439001694 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 177439001695 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 177439001696 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 177439001697 Protein of unknown function (DUF4125); Region: DUF4125; pfam13526 177439001698 Domain of unknown function (DUF4037); Region: DUF4037; pfam13228 177439001699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 177439001700 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 177439001701 putative dimer interface [polypeptide binding]; other site 177439001702 uncharacterized proteobacterial lipoprotein; Region: lp_; TIGR02722 177439001703 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 177439001704 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 177439001705 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 177439001706 active site 177439001707 C-terminal domain interface [polypeptide binding]; other site 177439001708 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 177439001709 active site 177439001710 N-terminal domain interface [polypeptide binding]; other site 177439001711 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 177439001712 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 177439001713 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 177439001714 Peptidase family M48; Region: Peptidase_M48; pfam01435 177439001715 DctM-like transporters; Region: DctM; pfam06808 177439001716 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 177439001717 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 177439001718 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177439001719 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 177439001720 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 177439001721 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 177439001722 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 177439001723 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 177439001724 active site 177439001725 phosphorylation site [posttranslational modification] 177439001726 intermolecular recognition site; other site 177439001727 dimerization interface [polypeptide binding]; other site 177439001728 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 177439001729 DNA binding site [nucleotide binding] 177439001730 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177439001731 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 177439001732 dimer interface [polypeptide binding]; other site 177439001733 phosphorylation site [posttranslational modification] 177439001734 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 177439001735 ATP binding site [chemical binding]; other site 177439001736 Mg2+ binding site [ion binding]; other site 177439001737 G-X-G motif; other site 177439001738 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 177439001739 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 177439001740 domain interfaces; other site 177439001741 active site 177439001742 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439001743 ABC transporter signature motif; other site 177439001744 Walker B; other site 177439001745 D-loop; other site 177439001746 H-loop/switch region; other site 177439001747 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 177439001748 NMT1/THI5 like; Region: NMT1; pfam09084 177439001749 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 177439001750 substrate binding pocket [chemical binding]; other site 177439001751 membrane-bound complex binding site; other site 177439001752 hinge residues; other site 177439001753 GlpM protein; Region: GlpM; pfam06942 177439001754 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 177439001755 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 177439001756 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439001757 Walker A/P-loop; other site 177439001758 ATP binding site [chemical binding]; other site 177439001759 Q-loop/lid; other site 177439001760 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 177439001761 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 177439001762 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 177439001763 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 177439001764 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 177439001765 dimer interface [polypeptide binding]; other site 177439001766 active site 177439001767 glycine loop; other site 177439001768 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 177439001769 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 177439001770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439001771 homodimer interface [polypeptide binding]; other site 177439001772 catalytic residue [active] 177439001773 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 177439001774 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177439001775 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 177439001776 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 177439001777 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 177439001778 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 177439001779 Peptidase family U32; Region: Peptidase_U32; pfam01136 177439001780 Collagenase; Region: DUF3656; pfam12392 177439001781 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 177439001782 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 177439001783 putative heme binding site [chemical binding]; other site 177439001784 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 177439001785 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 177439001786 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 177439001787 Beta-Casp domain; Region: Beta-Casp; smart01027 177439001788 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 177439001789 Met-10+ like-protein; Region: Met_10; pfam02475 177439001790 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 177439001791 S-adenosylmethionine binding site [chemical binding]; other site 177439001792 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439001793 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439001794 metal binding site [ion binding]; metal-binding site 177439001795 active site 177439001796 I-site; other site 177439001797 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 177439001798 putative bifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta; Provisional; Region: PRK12778 177439001799 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 177439001800 FAD binding pocket [chemical binding]; other site 177439001801 FAD binding motif [chemical binding]; other site 177439001802 phosphate binding motif [ion binding]; other site 177439001803 beta-alpha-beta structure motif; other site 177439001804 NAD binding pocket [chemical binding]; other site 177439001805 Iron coordination center [ion binding]; other site 177439001806 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177439001807 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 177439001808 Putative zinc ribbon domain; Region: DUF164; pfam02591 177439001809 Uncharacterized conserved protein [Function unknown]; Region: COG0327 177439001810 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 177439001811 MoxR-like ATPases [General function prediction only]; Region: COG0714 177439001812 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 177439001813 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 177439001814 Protein of unknown function DUF58; Region: DUF58; pfam01882 177439001815 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 177439001816 metal ion-dependent adhesion site (MIDAS); other site 177439001817 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 177439001818 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 177439001819 metal ion-dependent adhesion site (MIDAS); other site 177439001820 von Willebrand factor type A domain; Region: VWA_2; pfam13519 177439001821 metal ion-dependent adhesion site (MIDAS); other site 177439001822 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 177439001823 binding surface 177439001824 TPR motif; other site 177439001825 TPR repeat; Region: TPR_11; pfam13414 177439001826 Oxygen tolerance; Region: BatD; pfam13584 177439001827 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 177439001828 binding surface 177439001829 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177439001830 TPR motif; other site 177439001831 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 177439001832 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 177439001833 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439001834 homodimer interface [polypeptide binding]; other site 177439001835 catalytic residue [active] 177439001836 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 177439001837 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 177439001838 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 177439001839 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 177439001840 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 177439001841 active site 177439001842 phosphorylation site [posttranslational modification] 177439001843 intermolecular recognition site; other site 177439001844 dimerization interface [polypeptide binding]; other site 177439001845 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439001846 Zn2+ binding site [ion binding]; other site 177439001847 Mg2+ binding site [ion binding]; other site 177439001848 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 177439001849 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 177439001850 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 177439001851 Beta-lactamase; Region: Beta-lactamase; pfam00144 177439001852 DNA polymerase III subunit beta; Validated; Region: PRK05643 177439001853 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 177439001854 putative DNA binding surface [nucleotide binding]; other site 177439001855 dimer interface [polypeptide binding]; other site 177439001856 beta-clamp/clamp loader binding surface; other site 177439001857 beta-clamp/translesion DNA polymerase binding surface; other site 177439001858 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 177439001859 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 177439001860 ATP binding site [chemical binding]; other site 177439001861 Mg2+ binding site [ion binding]; other site 177439001862 G-X-G motif; other site 177439001863 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 177439001864 anchoring element; other site 177439001865 dimer interface [polypeptide binding]; other site 177439001866 ATP binding site [chemical binding]; other site 177439001867 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 177439001868 active site 177439001869 putative metal-binding site [ion binding]; other site 177439001870 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 177439001871 DNA gyrase subunit A; Validated; Region: PRK05560 177439001872 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 177439001873 CAP-like domain; other site 177439001874 active site 177439001875 primary dimer interface [polypeptide binding]; other site 177439001876 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 177439001877 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 177439001878 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 177439001879 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 177439001880 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 177439001881 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 177439001882 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 177439001883 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 177439001884 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 177439001885 VacJ like lipoprotein; Region: VacJ; cl01073 177439001886 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 177439001887 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 177439001888 putative NAD(P) binding site [chemical binding]; other site 177439001889 homotetramer interface [polypeptide binding]; other site 177439001890 homodimer interface [polypeptide binding]; other site 177439001891 active site 177439001892 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 177439001893 CoA binding domain; Region: CoA_binding_2; pfam13380 177439001894 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 177439001895 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 177439001896 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 177439001897 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 177439001898 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 177439001899 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 177439001900 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177439001901 Coenzyme A binding pocket [chemical binding]; other site 177439001902 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 177439001903 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 177439001904 active site 177439001905 catalytic residues [active] 177439001906 metal binding site [ion binding]; metal-binding site 177439001907 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 177439001908 malate dehydrogenase; Provisional; Region: PRK05442 177439001909 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 177439001910 NAD(P) binding site [chemical binding]; other site 177439001911 dimer interface [polypeptide binding]; other site 177439001912 malate binding site [chemical binding]; other site 177439001913 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 177439001914 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 177439001915 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 177439001916 PilZ domain; Region: PilZ; pfam07238 177439001917 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 177439001918 septum formation inhibitor; Reviewed; Region: minC; PRK00339 177439001919 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 177439001920 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 177439001921 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 177439001922 Switch I; other site 177439001923 Switch II; other site 177439001924 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 177439001925 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 177439001926 EamA-like transporter family; Region: EamA; pfam00892 177439001927 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 177439001928 EamA-like transporter family; Region: EamA; pfam00892 177439001929 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177439001930 active site 177439001931 uracil-xanthine permease; Region: ncs2; TIGR00801 177439001932 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 177439001933 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 177439001934 TPP-binding site [chemical binding]; other site 177439001935 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 177439001936 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 177439001937 PYR/PP interface [polypeptide binding]; other site 177439001938 dimer interface [polypeptide binding]; other site 177439001939 TPP binding site [chemical binding]; other site 177439001940 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 177439001941 Uncharacterized conserved protein (DUF2293); Region: DUF2293; pfam10056 177439001942 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 177439001943 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 177439001944 putative ligand binding site [chemical binding]; other site 177439001945 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177439001946 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 177439001947 TM-ABC transporter signature motif; other site 177439001948 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177439001949 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 177439001950 TM-ABC transporter signature motif; other site 177439001951 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177439001952 active site 177439001953 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 177439001954 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 177439001955 Walker A/P-loop; other site 177439001956 ATP binding site [chemical binding]; other site 177439001957 Q-loop/lid; other site 177439001958 ABC transporter signature motif; other site 177439001959 Walker B; other site 177439001960 D-loop; other site 177439001961 H-loop/switch region; other site 177439001962 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 177439001963 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 177439001964 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 177439001965 catalytic loop [active] 177439001966 iron binding site [ion binding]; other site 177439001967 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 177439001968 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 177439001969 [4Fe-4S] binding site [ion binding]; other site 177439001970 molybdopterin cofactor binding site; other site 177439001971 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 177439001972 molybdopterin cofactor binding site; other site 177439001973 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 177439001974 dimer interface [polypeptide binding]; other site 177439001975 [2Fe-2S] cluster binding site [ion binding]; other site 177439001976 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 177439001977 SLBB domain; Region: SLBB; pfam10531 177439001978 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 177439001979 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 177439001980 4Fe-4S binding domain; Region: Fer4; pfam00037 177439001981 NADH dehydrogenase subunit E; Validated; Region: PRK07539 177439001982 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 177439001983 putative dimer interface [polypeptide binding]; other site 177439001984 [2Fe-2S] cluster binding site [ion binding]; other site 177439001985 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 177439001986 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 177439001987 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 177439001988 active site 177439001989 catalytic residues [active] 177439001990 metal binding site [ion binding]; metal-binding site 177439001991 homodimer binding site [polypeptide binding]; other site 177439001992 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 177439001993 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 177439001994 carboxyltransferase (CT) interaction site; other site 177439001995 biotinylation site [posttranslational modification]; other site 177439001996 hypothetical protein; Validated; Region: PRK06748; cl17661 177439001997 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 177439001998 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 177439001999 mce related protein; Region: MCE; pfam02470 177439002000 mce related protein; Region: MCE; pfam02470 177439002001 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 177439002002 mce related protein; Region: MCE; pfam02470 177439002003 mce related protein; Region: MCE; pfam02470 177439002004 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 177439002005 Paraquat-inducible protein A; Region: PqiA; pfam04403 177439002006 Paraquat-inducible protein A; Region: PqiA; pfam04403 177439002007 PEGA domain; Region: PEGA; pfam08308 177439002008 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 177439002009 Na binding site [ion binding]; other site 177439002010 glutamate racemase; Provisional; Region: PRK00865 177439002011 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 177439002012 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 177439002013 S-adenosylmethionine binding site [chemical binding]; other site 177439002014 PilZ domain; Region: PilZ; pfam07238 177439002015 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 177439002016 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 177439002017 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 177439002018 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 177439002019 active site residue [active] 177439002020 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 177439002021 Staphylococcal nuclease homologues; Region: SNc; smart00318 177439002022 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 177439002023 Catalytic site; other site 177439002024 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 177439002025 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 177439002026 Uncharacterized conserved protein [Function unknown]; Region: COG1739 177439002027 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 177439002028 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 177439002029 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 177439002030 dimerization interface [polypeptide binding]; other site 177439002031 ATP binding site [chemical binding]; other site 177439002032 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 177439002033 dimerization interface [polypeptide binding]; other site 177439002034 ATP binding site [chemical binding]; other site 177439002035 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 177439002036 putative active site [active] 177439002037 catalytic triad [active] 177439002038 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 177439002039 RibD C-terminal domain; Region: RibD_C; cl17279 177439002040 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 177439002041 amino acid carrier protein; Region: agcS; TIGR00835 177439002042 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 177439002043 active site 177439002044 dimerization interface [polypeptide binding]; other site 177439002045 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 177439002046 Ligand Binding Site [chemical binding]; other site 177439002047 Nif-specific regulatory protein; Region: nifA; TIGR01817 177439002048 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 177439002049 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 177439002050 Walker A motif; other site 177439002051 ATP binding site [chemical binding]; other site 177439002052 Walker B motif; other site 177439002053 arginine finger; other site 177439002054 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177439002055 L-aspartate oxidase; Provisional; Region: PRK06175 177439002056 L-aspartate oxidase; Provisional; Region: PRK09077 177439002057 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 177439002058 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 177439002059 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 177439002060 GatB domain; Region: GatB_Yqey; smart00845 177439002061 hypothetical protein; Reviewed; Region: PRK00024 177439002062 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 177439002063 MPN+ (JAMM) motif; other site 177439002064 Zinc-binding site [ion binding]; other site 177439002065 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 177439002066 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 177439002067 FeS/SAM binding site; other site 177439002068 HemN C-terminal domain; Region: HemN_C; pfam06969 177439002069 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 177439002070 putative active site [active] 177439002071 putative metal binding residues [ion binding]; other site 177439002072 signature motif; other site 177439002073 putative dimer interface [polypeptide binding]; other site 177439002074 putative phosphate binding site [ion binding]; other site 177439002075 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 177439002076 DNA repair protein RadA; Provisional; Region: PRK11823 177439002077 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 177439002078 Walker A motif/ATP binding site; other site 177439002079 ATP binding site [chemical binding]; other site 177439002080 Walker B motif; other site 177439002081 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 177439002082 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 177439002083 cyclase homology domain; Region: CHD; cd07302 177439002084 nucleotidyl binding site; other site 177439002085 metal binding site [ion binding]; metal-binding site 177439002086 dimer interface [polypeptide binding]; other site 177439002087 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177439002088 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 177439002089 ligand binding site [chemical binding]; other site 177439002090 flexible hinge region; other site 177439002091 Vitamin K epoxide reductase (VKOR) family in bacteria; Region: VKOR_4; cd12921 177439002092 putative active site [active] 177439002093 redox center [active] 177439002094 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 177439002095 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 177439002096 active site 177439002097 dimer interface [polypeptide binding]; other site 177439002098 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 177439002099 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 177439002100 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 177439002101 TrkA-N domain; Region: TrkA_N; pfam02254 177439002102 TrkA-C domain; Region: TrkA_C; pfam02080 177439002103 TrkA-N domain; Region: TrkA_N; pfam02254 177439002104 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177439002105 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 177439002106 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 177439002107 putative dimerization interface [polypeptide binding]; other site 177439002108 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 177439002109 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 177439002110 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 177439002111 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 177439002112 dimer interface [polypeptide binding]; other site 177439002113 FMN binding site [chemical binding]; other site 177439002114 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 177439002115 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 177439002116 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 177439002117 Predicted membrane protein [Function unknown]; Region: COG1238 177439002118 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 177439002119 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177439002120 ligand binding site [chemical binding]; other site 177439002121 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 177439002122 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 177439002123 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 177439002124 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 177439002125 S-adenosylmethionine binding site [chemical binding]; other site 177439002126 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177439002127 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 177439002128 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 177439002129 Response regulator receiver domain; Region: Response_reg; pfam00072 177439002130 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 177439002131 active site 177439002132 phosphorylation site [posttranslational modification] 177439002133 intermolecular recognition site; other site 177439002134 dimerization interface [polypeptide binding]; other site 177439002135 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 177439002136 active site 177439002137 phosphorylation site [posttranslational modification] 177439002138 intermolecular recognition site; other site 177439002139 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 177439002140 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 177439002141 dimer interface [polypeptide binding]; other site 177439002142 active site 177439002143 CoA binding pocket [chemical binding]; other site 177439002144 hybrid cluster protein; Provisional; Region: PRK05290 177439002145 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 177439002146 ACS interaction site; other site 177439002147 CODH interaction site; other site 177439002148 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 177439002149 hybrid metal cluster; other site 177439002150 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 177439002151 Ligand Binding Site [chemical binding]; other site 177439002152 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 177439002153 DctM-like transporters; Region: DctM; pfam06808 177439002154 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 177439002155 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 177439002156 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 177439002157 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 177439002158 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 177439002159 active site 177439002160 catalytic residues [active] 177439002161 metal binding site [ion binding]; metal-binding site 177439002162 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 177439002163 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 177439002164 putative active site [active] 177439002165 substrate binding site [chemical binding]; other site 177439002166 putative cosubstrate binding site; other site 177439002167 catalytic site [active] 177439002168 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 177439002169 substrate binding site [chemical binding]; other site 177439002170 hypothetical protein; Provisional; Region: PRK04194 177439002171 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 177439002172 tetramer interfaces [polypeptide binding]; other site 177439002173 binuclear metal-binding site [ion binding]; other site 177439002174 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 177439002175 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 177439002176 active site 177439002177 phosphorylation site [posttranslational modification] 177439002178 intermolecular recognition site; other site 177439002179 dimerization interface [polypeptide binding]; other site 177439002180 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 177439002181 DNA binding site [nucleotide binding] 177439002182 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 177439002183 AsnC family; Region: AsnC_trans_reg; pfam01037 177439002184 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 177439002185 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 177439002186 putative ligand binding site [chemical binding]; other site 177439002187 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 177439002188 dimer interface [polypeptide binding]; other site 177439002189 phosphorylation site [posttranslational modification] 177439002190 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 177439002191 ATP binding site [chemical binding]; other site 177439002192 Mg2+ binding site [ion binding]; other site 177439002193 G-X-G motif; other site 177439002194 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 177439002195 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 177439002196 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 177439002197 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 177439002198 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 177439002199 protein binding site [polypeptide binding]; other site 177439002200 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 177439002201 protein binding site [polypeptide binding]; other site 177439002202 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 177439002203 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 177439002204 Walker A/P-loop; other site 177439002205 ATP binding site [chemical binding]; other site 177439002206 Q-loop/lid; other site 177439002207 ABC transporter signature motif; other site 177439002208 Walker B; other site 177439002209 D-loop; other site 177439002210 H-loop/switch region; other site 177439002211 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 177439002212 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 177439002213 cobalt transport protein CbiM; Validated; Region: PRK06265 177439002214 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 177439002215 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 177439002216 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cd00322 177439002217 FAD binding pocket [chemical binding]; other site 177439002218 conserved FAD binding motif [chemical binding]; other site 177439002219 phosphate binding motif [ion binding]; other site 177439002220 beta-alpha-beta structure motif; other site 177439002221 NAD binding pocket [chemical binding]; other site 177439002222 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 177439002223 homodimer interaction site [polypeptide binding]; other site 177439002224 cofactor binding site; other site 177439002225 OstA-like protein; Region: OstA; cl00844 177439002226 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 177439002227 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 177439002228 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 177439002229 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 177439002230 CTP synthetase; Validated; Region: pyrG; PRK05380 177439002231 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 177439002232 Catalytic site [active] 177439002233 active site 177439002234 UTP binding site [chemical binding]; other site 177439002235 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 177439002236 active site 177439002237 putative oxyanion hole; other site 177439002238 catalytic triad [active] 177439002239 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 177439002240 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 177439002241 transmembrane helices; other site 177439002242 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 177439002243 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 177439002244 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 177439002245 Dihydroorotate dehydrogenase (DHOD) like proteins. 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...; Region: DHOD_like; cd04739 177439002246 putative active site [active] 177439002247 putative FMN binding site [chemical binding]; other site 177439002248 putative substrate binding site [chemical binding]; other site 177439002249 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 177439002250 SLBB domain; Region: SLBB; pfam10531 177439002251 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 177439002252 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 177439002253 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 177439002254 electron transport complex RsxE subunit; Provisional; Region: PRK12405 177439002255 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 177439002256 ferredoxin; Validated; Region: PRK07118 177439002257 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 177439002258 ApbE family; Region: ApbE; pfam02424 177439002259 hypothetical protein; Provisional; Region: PRK10279 177439002260 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 177439002261 active site 177439002262 nucleophile elbow; other site 177439002263 isocitrate dehydrogenase; Validated; Region: PRK08299 177439002264 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 177439002265 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 177439002266 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 177439002267 GTP-binding protein YchF; Reviewed; Region: PRK09601 177439002268 YchF GTPase; Region: YchF; cd01900 177439002269 G1 box; other site 177439002270 GTP/Mg2+ binding site [chemical binding]; other site 177439002271 Switch I region; other site 177439002272 G2 box; other site 177439002273 Switch II region; other site 177439002274 G3 box; other site 177439002275 G4 box; other site 177439002276 G5 box; other site 177439002277 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 177439002278 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 177439002279 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 177439002280 generic binding surface II; other site 177439002281 generic binding surface I; other site 177439002282 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439002283 Zn2+ binding site [ion binding]; other site 177439002284 Mg2+ binding site [ion binding]; other site 177439002285 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 177439002286 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 177439002287 Walker A motif; other site 177439002288 ATP binding site [chemical binding]; other site 177439002289 Walker B motif; other site 177439002290 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 177439002291 arginine finger; other site 177439002292 PSP1 C-terminal conserved region; Region: PSP1; cl00770 177439002293 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 177439002294 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 177439002295 active site 177439002296 HIGH motif; other site 177439002297 KMSKS motif; other site 177439002298 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 177439002299 tRNA binding surface [nucleotide binding]; other site 177439002300 anticodon binding site; other site 177439002301 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 177439002302 dimer interface [polypeptide binding]; other site 177439002303 putative tRNA-binding site [nucleotide binding]; other site 177439002304 YGGT family; Region: YGGT; pfam02325 177439002305 DivIVA protein; Region: DivIVA; pfam05103 177439002306 DivIVA domain; Region: DivI1A_domain; TIGR03544 177439002307 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 177439002308 triosephosphate isomerase; Provisional; Region: PRK14565 177439002309 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 177439002310 substrate binding site [chemical binding]; other site 177439002311 dimer interface [polypeptide binding]; other site 177439002312 catalytic triad [active] 177439002313 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 177439002314 ABC1 family; Region: ABC1; pfam03109 177439002315 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 177439002316 active site 177439002317 ATP binding site [chemical binding]; other site 177439002318 ABC1 family; Region: ABC1; cl17513 177439002319 DNA primase, catalytic core; Region: dnaG; TIGR01391 177439002320 CHC2 zinc finger; Region: zf-CHC2; pfam01807 177439002321 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 177439002322 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 177439002323 active site 177439002324 metal binding site [ion binding]; metal-binding site 177439002325 interdomain interaction site; other site 177439002326 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 177439002327 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 177439002328 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 177439002329 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 177439002330 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 177439002331 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 177439002332 DNA binding residues [nucleotide binding] 177439002333 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 177439002334 DNA protecting protein DprA; Region: dprA; TIGR00732 177439002335 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 177439002336 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 177439002337 substrate binding site [chemical binding]; other site 177439002338 hexamer interface [polypeptide binding]; other site 177439002339 metal binding site [ion binding]; metal-binding site 177439002340 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 177439002341 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 177439002342 active site 177439002343 dimer interface [polypeptide binding]; other site 177439002344 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 177439002345 dimer interface [polypeptide binding]; other site 177439002346 active site 177439002347 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 177439002348 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 177439002349 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 177439002350 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 177439002351 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 177439002352 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 177439002353 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 177439002354 S-adenosylmethionine synthetase; Validated; Region: PRK05250 177439002355 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 177439002356 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 177439002357 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 177439002358 KpsF/GutQ family protein; Region: kpsF; TIGR00393 177439002359 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 177439002360 putative active site [active] 177439002361 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 177439002362 Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin...; Region: UBCc; cl00154 177439002363 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 177439002364 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177439002365 ligand binding site [chemical binding]; other site 177439002366 flexible hinge region; other site 177439002367 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 177439002368 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 177439002369 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 177439002370 motif II; other site 177439002371 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 177439002372 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 177439002373 Protein export membrane protein; Region: SecD_SecF; pfam02355 177439002374 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 177439002375 AIR carboxylase; Region: AIRC; smart01001 177439002376 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 177439002377 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 177439002378 binding surface 177439002379 TPR motif; other site 177439002380 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 177439002381 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 177439002382 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177439002383 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 177439002384 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 177439002385 catalytic residues [active] 177439002386 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 177439002387 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 177439002388 inhibitor-cofactor binding pocket; inhibition site 177439002389 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439002390 catalytic residue [active] 177439002391 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 177439002392 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 177439002393 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 177439002394 ATP synthase subunit C; Region: ATP-synt_C; cl00466 177439002395 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 177439002396 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 177439002397 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 177439002398 FeS/SAM binding site; other site 177439002399 TRAM domain; Region: TRAM; cl01282 177439002400 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 177439002401 IHF - DNA interface [nucleotide binding]; other site 177439002402 IHF dimer interface [polypeptide binding]; other site 177439002403 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 177439002404 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 177439002405 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 177439002406 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 177439002407 RNA binding surface [nucleotide binding]; other site 177439002408 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 177439002409 active site 177439002410 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 177439002411 Shikimate kinase; Region: SKI; pfam01202 177439002412 ADP binding site [chemical binding]; other site 177439002413 magnesium binding site [ion binding]; other site 177439002414 putative shikimate binding site; other site 177439002415 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 177439002416 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 177439002417 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 177439002418 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 177439002419 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 177439002420 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 177439002421 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 177439002422 dimerization interface [polypeptide binding]; other site 177439002423 putative DNA binding site [nucleotide binding]; other site 177439002424 putative Zn2+ binding site [ion binding]; other site 177439002425 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177439002426 AMP-binding enzyme; Region: AMP-binding; pfam00501 177439002427 acyl-activating enzyme (AAE) consensus motif; other site 177439002428 active site 177439002429 AMP binding site [chemical binding]; other site 177439002430 CoA binding site [chemical binding]; other site 177439002431 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177439002432 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 177439002433 Na2 binding site [ion binding]; other site 177439002434 putative substrate binding site 1 [chemical binding]; other site 177439002435 Na binding site 1 [ion binding]; other site 177439002436 putative substrate binding site 2 [chemical binding]; other site 177439002437 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 177439002438 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 177439002439 motif 1; other site 177439002440 active site 177439002441 motif 2; other site 177439002442 motif 3; other site 177439002443 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 177439002444 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 177439002445 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 177439002446 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 177439002447 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 177439002448 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 177439002449 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 177439002450 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 177439002451 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 177439002452 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 177439002453 beta subunit interaction interface [polypeptide binding]; other site 177439002454 Walker A motif; other site 177439002455 ATP binding site [chemical binding]; other site 177439002456 Walker B motif; other site 177439002457 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 177439002458 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 177439002459 core domain interface [polypeptide binding]; other site 177439002460 delta subunit interface [polypeptide binding]; other site 177439002461 epsilon subunit interface [polypeptide binding]; other site 177439002462 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 177439002463 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 177439002464 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 177439002465 alpha subunit interaction interface [polypeptide binding]; other site 177439002466 Walker A motif; other site 177439002467 ATP binding site [chemical binding]; other site 177439002468 Walker B motif; other site 177439002469 inhibitor binding site; inhibition site 177439002470 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 177439002471 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 177439002472 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 177439002473 gamma subunit interface [polypeptide binding]; other site 177439002474 epsilon subunit interface [polypeptide binding]; other site 177439002475 LBP interface [polypeptide binding]; other site 177439002476 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 177439002477 MutS domain I; Region: MutS_I; pfam01624 177439002478 MutS domain II; Region: MutS_II; pfam05188 177439002479 MutS domain III; Region: MutS_III; pfam05192 177439002480 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 177439002481 Walker A/P-loop; other site 177439002482 ATP binding site [chemical binding]; other site 177439002483 Q-loop/lid; other site 177439002484 ABC transporter signature motif; other site 177439002485 Walker B; other site 177439002486 D-loop; other site 177439002487 H-loop/switch region; other site 177439002488 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 177439002489 nucleotide binding site/active site [active] 177439002490 HIT family signature motif; other site 177439002491 catalytic residue [active] 177439002492 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 177439002493 active site 177439002494 metal binding site [ion binding]; metal-binding site 177439002495 homotetramer interface [polypeptide binding]; other site 177439002496 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 177439002497 active site 177439002498 substrate binding site [chemical binding]; other site 177439002499 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 177439002500 FMN binding site [chemical binding]; other site 177439002501 putative catalytic residues [active] 177439002502 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 177439002503 active site residue [active] 177439002504 elongation factor P; Validated; Region: PRK00529 177439002505 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 177439002506 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 177439002507 RNA binding site [nucleotide binding]; other site 177439002508 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 177439002509 RNA binding site [nucleotide binding]; other site 177439002510 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 177439002511 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 177439002512 motif 1; other site 177439002513 dimer interface [polypeptide binding]; other site 177439002514 active site 177439002515 motif 2; other site 177439002516 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 177439002517 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 177439002518 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 177439002519 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 177439002520 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 177439002521 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 177439002522 Sulfate transporter family; Region: Sulfate_transp; pfam00916 177439002523 Sulfate transporter family; Region: Sulfate_transp; pfam00916 177439002524 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 177439002525 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 177439002526 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_cladeC; cd03378 177439002527 active site clefts [active] 177439002528 zinc binding site [ion binding]; other site 177439002529 dimer interface [polypeptide binding]; other site 177439002530 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 177439002531 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 177439002532 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 177439002533 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 177439002534 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 177439002535 S-adenosylmethionine binding site [chemical binding]; other site 177439002536 Ribonuclease P; Region: Ribonuclease_P; pfam00825 177439002537 membrane protein insertase; Provisional; Region: PRK01318 177439002538 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 177439002539 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 177439002540 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 177439002541 G-X-X-G motif; other site 177439002542 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 177439002543 RxxxH motif; other site 177439002544 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 177439002545 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 177439002546 trmE is a tRNA modification GTPase; Region: trmE; cd04164 177439002547 G1 box; other site 177439002548 GTP/Mg2+ binding site [chemical binding]; other site 177439002549 Switch I region; other site 177439002550 G2 box; other site 177439002551 Switch II region; other site 177439002552 G3 box; other site 177439002553 G4 box; other site 177439002554 G5 box; other site 177439002555 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 177439002556 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 177439002557 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 177439002558 conserved cys residue [active] 177439002559 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 177439002560 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 177439002561 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 177439002562 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 177439002563 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 177439002564 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 177439002565 dimer interface [polypeptide binding]; other site 177439002566 putative functional site; other site 177439002567 putative MPT binding site; other site 177439002568 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_3; cd08770 177439002569 SxDxEG motif; other site 177439002570 putative active site [active] 177439002571 putative metal binding site [ion binding]; other site 177439002572 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 177439002573 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 177439002574 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439002575 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439002576 metal binding site [ion binding]; metal-binding site 177439002577 active site 177439002578 I-site; other site 177439002579 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 177439002580 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 177439002581 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 177439002582 putative active site [active] 177439002583 putative metal binding site [ion binding]; other site 177439002584 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 177439002585 AAA ATPase domain; Region: AAA_16; pfam13191 177439002586 NB-ARC domain; Region: NB-ARC; pfam00931 177439002587 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 177439002588 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 177439002589 TPR motif; other site 177439002590 binding surface 177439002591 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 177439002592 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 177439002593 PYR/PP interface [polypeptide binding]; other site 177439002594 dimer interface [polypeptide binding]; other site 177439002595 TPP binding site [chemical binding]; other site 177439002596 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 177439002597 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 177439002598 TPP-binding site [chemical binding]; other site 177439002599 4Fe-4S binding domain; Region: Fer4_5; pfam12801 177439002600 4Fe-4S binding domain; Region: Fer4_5; pfam12801 177439002601 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177439002602 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 177439002603 hypothetical protein; Provisional; Region: PRK07101 177439002604 substrate-cofactor binding pocket; other site 177439002605 para-aminobenzoate synthase component I; Validated; Region: PRK07093 177439002606 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 177439002607 Glutamine amidotransferase class-I; Region: GATase; pfam00117 177439002608 glutamine binding [chemical binding]; other site 177439002609 catalytic triad [active] 177439002610 Yqey-like protein; Region: YqeY; cl17540 177439002611 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177439002612 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 177439002613 NAD(P)H:flavin oxidoreductase-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; Region: NADPH_oxidoreductase_2; cd02151 177439002614 putative FMN binding site [chemical binding]; other site 177439002615 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 177439002616 Part of AAA domain; Region: AAA_19; pfam13245 177439002617 Family description; Region: UvrD_C_2; pfam13538 177439002618 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177439002619 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 177439002620 substrate binding pocket [chemical binding]; other site 177439002621 membrane-bound complex binding site; other site 177439002622 hinge residues; other site 177439002623 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 177439002624 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 177439002625 putative active site [active] 177439002626 heme pocket [chemical binding]; other site 177439002627 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 177439002628 dimer interface [polypeptide binding]; other site 177439002629 phosphorylation site [posttranslational modification] 177439002630 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 177439002631 ATP binding site [chemical binding]; other site 177439002632 Mg2+ binding site [ion binding]; other site 177439002633 G-X-G motif; other site 177439002634 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177439002635 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 177439002636 active site 177439002637 phosphorylation site [posttranslational modification] 177439002638 intermolecular recognition site; other site 177439002639 dimerization interface [polypeptide binding]; other site 177439002640 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 177439002641 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 177439002642 active site 177439002643 phosphorylation site [posttranslational modification] 177439002644 intermolecular recognition site; other site 177439002645 dimerization interface [polypeptide binding]; other site 177439002646 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439002647 Zn2+ binding site [ion binding]; other site 177439002648 Mg2+ binding site [ion binding]; other site 177439002649 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 177439002650 nucleotide binding site/active site [active] 177439002651 HIT family signature motif; other site 177439002652 catalytic residue [active] 177439002653 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 177439002654 Clp amino terminal domain; Region: Clp_N; pfam02861 177439002655 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 177439002656 Walker A motif; other site 177439002657 ATP binding site [chemical binding]; other site 177439002658 Walker B motif; other site 177439002659 arginine finger; other site 177439002660 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 177439002661 Walker A motif; other site 177439002662 ATP binding site [chemical binding]; other site 177439002663 Walker B motif; other site 177439002664 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 177439002665 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 177439002666 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 177439002667 threonine dehydratase; Reviewed; Region: PRK09224 177439002668 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 177439002669 tetramer interface [polypeptide binding]; other site 177439002670 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439002671 catalytic residue [active] 177439002672 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 177439002673 putative Ile/Val binding site [chemical binding]; other site 177439002674 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 177439002675 putative Ile/Val binding site [chemical binding]; other site 177439002676 Predicted membrane protein [Function unknown]; Region: COG1971 177439002677 Domain of unknown function DUF; Region: DUF204; pfam02659 177439002678 Domain of unknown function DUF; Region: DUF204; pfam02659 177439002679 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 177439002680 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 177439002681 TPP-binding site [chemical binding]; other site 177439002682 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 177439002683 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 177439002684 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 177439002685 dimer interface [polypeptide binding]; other site 177439002686 PYR/PP interface [polypeptide binding]; other site 177439002687 TPP binding site [chemical binding]; other site 177439002688 substrate binding site [chemical binding]; other site 177439002689 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 177439002690 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177439002691 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177439002692 Dehydratase family; Region: ILVD_EDD; cl00340 177439002693 Dehydratase family; Region: ILVD_EDD; cl00340 177439002694 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 177439002695 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 177439002696 Walker A motif; other site 177439002697 ATP binding site [chemical binding]; other site 177439002698 Walker B motif; other site 177439002699 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 177439002700 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 177439002701 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 177439002702 ATP binding site [chemical binding]; other site 177439002703 Mg++ binding site [ion binding]; other site 177439002704 motif III; other site 177439002705 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 177439002706 nucleotide binding region [chemical binding]; other site 177439002707 ATP-binding site [chemical binding]; other site 177439002708 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 177439002709 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 177439002710 RNA binding site [nucleotide binding]; other site 177439002711 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 177439002712 RNA binding site [nucleotide binding]; other site 177439002713 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 177439002714 RNA binding site [nucleotide binding]; other site 177439002715 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 177439002716 RNA binding site [nucleotide binding]; other site 177439002717 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 177439002718 RNA binding site [nucleotide binding]; other site 177439002719 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 177439002720 RNA binding site [nucleotide binding]; other site 177439002721 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 177439002722 IHF dimer interface [polypeptide binding]; other site 177439002723 IHF - DNA interface [nucleotide binding]; other site 177439002724 tRNA threonylcarbamoyl adenosine modification protein, Sua5/YciO/YrdC/YwlC family; Region: TIGR00057 177439002725 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 177439002726 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 177439002727 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 177439002728 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 177439002729 active site 177439002730 GMP synthase; Reviewed; Region: guaA; PRK00074 177439002731 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 177439002732 AMP/PPi binding site [chemical binding]; other site 177439002733 candidate oxyanion hole; other site 177439002734 catalytic triad [active] 177439002735 potential glutamine specificity residues [chemical binding]; other site 177439002736 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 177439002737 ATP Binding subdomain [chemical binding]; other site 177439002738 Ligand Binding sites [chemical binding]; other site 177439002739 Dimerization subdomain; other site 177439002740 LabA_like proteins; Region: LabA; cd10911 177439002741 putative metal binding site [ion binding]; other site 177439002742 Uncharacterized conserved protein [Function unknown]; Region: COG1432 177439002743 mechanosensitive channel MscS; Provisional; Region: PRK10334 177439002744 Conserved TM helix; Region: TM_helix; pfam05552 177439002745 Mechanosensitive ion channel; Region: MS_channel; pfam00924 177439002746 Phosphotransferase enzyme family; Region: APH; pfam01636 177439002747 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 177439002748 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 177439002749 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 177439002750 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 177439002751 Preprotein translocase subunit; Region: YajC; pfam02699 177439002752 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 177439002753 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 177439002754 active site 177439002755 RNA/DNA hybrid binding site [nucleotide binding]; other site 177439002756 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 177439002757 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 177439002758 DNA binding site [nucleotide binding] 177439002759 catalytic residue [active] 177439002760 H2TH interface [polypeptide binding]; other site 177439002761 putative catalytic residues [active] 177439002762 turnover-facilitating residue; other site 177439002763 intercalation triad [nucleotide binding]; other site 177439002764 8OG recognition residue [nucleotide binding]; other site 177439002765 putative reading head residues; other site 177439002766 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 177439002767 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 177439002768 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 177439002769 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 177439002770 Colicin V production protein; Region: Colicin_V; pfam02674 177439002771 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 177439002772 dimer interface [polypeptide binding]; other site 177439002773 substrate binding site [chemical binding]; other site 177439002774 ATP binding site [chemical binding]; other site 177439002775 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 177439002776 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 177439002777 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177439002778 active site 177439002779 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 177439002780 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 177439002781 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 177439002782 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 177439002783 DNA binding site [nucleotide binding] 177439002784 active site 177439002785 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 177439002786 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 177439002787 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 177439002788 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 177439002789 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 177439002790 UbiA prenyltransferase family; Region: UbiA; pfam01040 177439002791 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177439002792 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 177439002793 NAD(P) binding site [chemical binding]; other site 177439002794 active site 177439002795 4Fe-4S binding domain; Region: Fer4; pfam00037 177439002796 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 177439002797 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 177439002798 putative FMN binding site [chemical binding]; other site 177439002799 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 177439002800 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 177439002801 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 177439002802 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 177439002803 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 177439002804 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 177439002805 Nitrogen regulatory protein P-II; Region: P-II; smart00938 177439002806 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 177439002807 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 177439002808 metal binding triad; other site 177439002809 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 177439002810 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 177439002811 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 177439002812 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 177439002813 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 177439002814 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 177439002815 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 177439002816 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 177439002817 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 177439002818 Sulfate transporter family; Region: Sulfate_transp; pfam00916 177439002819 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 177439002820 Protein of unknown function (DUF721); Region: DUF721; pfam05258 177439002821 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 177439002822 DNA-binding site [nucleotide binding]; DNA binding site 177439002823 RNA-binding motif; other site 177439002824 conserved hypothetical protein; Region: TIGR03833 177439002825 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 177439002826 DNA-binding site [nucleotide binding]; DNA binding site 177439002827 RNA-binding motif; other site 177439002828 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 177439002829 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 177439002830 ATP binding site [chemical binding]; other site 177439002831 Mg++ binding site [ion binding]; other site 177439002832 motif III; other site 177439002833 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 177439002834 nucleotide binding region [chemical binding]; other site 177439002835 ATP-binding site [chemical binding]; other site 177439002836 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 177439002837 active site clefts [active] 177439002838 zinc binding site [ion binding]; other site 177439002839 dimer interface [polypeptide binding]; other site 177439002840 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 177439002841 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 177439002842 active site 177439002843 NAD binding site [chemical binding]; other site 177439002844 metal binding site [ion binding]; metal-binding site 177439002845 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 177439002846 Predicted transcriptional regulators [Transcription]; Region: COG1733 177439002847 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 177439002848 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 177439002849 dimerization interface [polypeptide binding]; other site 177439002850 putative DNA binding site [nucleotide binding]; other site 177439002851 putative Zn2+ binding site [ion binding]; other site 177439002852 Predicted permease; Region: DUF318; cl17795 177439002853 Predicted permease; Region: DUF318; cl17795 177439002854 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 177439002855 DGC domain; Region: DGC; pfam08859 177439002856 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 177439002857 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 177439002858 catalytic residues [active] 177439002859 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 177439002860 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 177439002861 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 177439002862 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 177439002863 dimer interface [polypeptide binding]; other site 177439002864 active site 177439002865 metal binding site [ion binding]; metal-binding site 177439002866 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 177439002867 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 177439002868 dimer interface [polypeptide binding]; other site 177439002869 active site 177439002870 metal binding site [ion binding]; metal-binding site 177439002871 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 177439002872 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 177439002873 dimer interface [polypeptide binding]; other site 177439002874 active site 177439002875 metal binding site [ion binding]; metal-binding site 177439002876 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177439002877 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 177439002878 active site 177439002879 phosphorylation site [posttranslational modification] 177439002880 intermolecular recognition site; other site 177439002881 dimerization interface [polypeptide binding]; other site 177439002882 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 177439002883 Walker A motif; other site 177439002884 ATP binding site [chemical binding]; other site 177439002885 Walker B motif; other site 177439002886 arginine finger; other site 177439002887 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177439002888 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 177439002889 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 177439002890 dimer interface [polypeptide binding]; other site 177439002891 phosphorylation site [posttranslational modification] 177439002892 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 177439002893 ATP binding site [chemical binding]; other site 177439002894 Mg2+ binding site [ion binding]; other site 177439002895 G-X-G motif; other site 177439002896 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 177439002897 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 177439002898 putative active site [active] 177439002899 metal binding site [ion binding]; metal-binding site 177439002900 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 177439002901 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 177439002902 active site 177439002903 trimerization site [polypeptide binding]; other site 177439002904 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 177439002905 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 177439002906 G1 box; other site 177439002907 GTP/Mg2+ binding site [chemical binding]; other site 177439002908 Switch I region; other site 177439002909 G2 box; other site 177439002910 G3 box; other site 177439002911 Switch II region; other site 177439002912 G4 box; other site 177439002913 G5 box; other site 177439002914 Nucleoside recognition; Region: Gate; pfam07670 177439002915 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 177439002916 Nucleoside recognition; Region: Gate; pfam07670 177439002917 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 177439002918 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 177439002919 DNA-binding site [nucleotide binding]; DNA binding site 177439002920 RNA-binding motif; other site 177439002921 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 177439002922 Cache domain; Region: Cache_1; pfam02743 177439002923 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 177439002924 dimerization interface [polypeptide binding]; other site 177439002925 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439002926 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439002927 dimer interface [polypeptide binding]; other site 177439002928 putative CheW interface [polypeptide binding]; other site 177439002929 Cache domain; Region: Cache_1; pfam02743 177439002930 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 177439002931 dimerization interface [polypeptide binding]; other site 177439002932 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439002933 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439002934 dimer interface [polypeptide binding]; other site 177439002935 putative CheW interface [polypeptide binding]; other site 177439002936 BCCT family transporter; Region: BCCT; pfam02028 177439002937 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 177439002938 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 177439002939 active site 177439002940 catalytic site [active] 177439002941 substrate binding site [chemical binding]; other site 177439002942 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 177439002943 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 177439002944 ligand binding site [chemical binding]; other site 177439002945 flexible hinge region; other site 177439002946 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 177439002947 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 177439002948 metal binding triad; other site 177439002949 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 177439002950 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 177439002951 Sulfate transporter family; Region: Sulfate_transp; pfam00916 177439002952 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 177439002953 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 177439002954 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 177439002955 CPxP motif; other site 177439002956 DsrE/DsrF-like family; Region: DrsE; pfam02635 177439002957 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 177439002958 dimerization interface [polypeptide binding]; other site 177439002959 putative ATP binding site [chemical binding]; other site 177439002960 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 177439002961 Hemerythrin; Region: Hemerythrin; cd12107 177439002962 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439002963 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439002964 metal binding site [ion binding]; metal-binding site 177439002965 active site 177439002966 I-site; other site 177439002967 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 177439002968 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 177439002969 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 177439002970 TrkA-N domain; Region: TrkA_N; pfam02254 177439002971 TrkA-C domain; Region: TrkA_C; pfam02080 177439002972 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 177439002973 Predicted permease [General function prediction only]; Region: COG2985 177439002974 TrkA-C domain; Region: TrkA_C; pfam02080 177439002975 TrkA-C domain; Region: TrkA_C; pfam02080 177439002976 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 177439002977 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 177439002978 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439002979 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439002980 dimer interface [polypeptide binding]; other site 177439002981 putative CheW interface [polypeptide binding]; other site 177439002982 Cache domain; Region: Cache_2; cl07034 177439002983 HAMP domain; Region: HAMP; pfam00672 177439002984 dimerization interface [polypeptide binding]; other site 177439002985 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439002986 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439002987 dimer interface [polypeptide binding]; other site 177439002988 putative CheW interface [polypeptide binding]; other site 177439002989 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 177439002990 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 177439002991 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 177439002992 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 177439002993 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 177439002994 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 177439002995 Cache domain; Region: Cache_1; pfam02743 177439002996 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 177439002997 dimerization interface [polypeptide binding]; other site 177439002998 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439002999 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439003000 dimer interface [polypeptide binding]; other site 177439003001 putative CheW interface [polypeptide binding]; other site 177439003002 Cache domain; Region: Cache_1; pfam02743 177439003003 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 177439003004 dimerization interface [polypeptide binding]; other site 177439003005 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439003006 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439003007 dimer interface [polypeptide binding]; other site 177439003008 putative CheW interface [polypeptide binding]; other site 177439003009 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 177439003010 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 177439003011 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 177439003012 Walker A/P-loop; other site 177439003013 ATP binding site [chemical binding]; other site 177439003014 Q-loop/lid; other site 177439003015 ABC transporter signature motif; other site 177439003016 Walker B; other site 177439003017 D-loop; other site 177439003018 H-loop/switch region; other site 177439003019 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177439003020 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 177439003021 dimer interface [polypeptide binding]; other site 177439003022 conserved gate region; other site 177439003023 putative PBP binding loops; other site 177439003024 ABC-ATPase subunit interface; other site 177439003025 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 177439003026 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177439003027 substrate binding pocket [chemical binding]; other site 177439003028 membrane-bound complex binding site; other site 177439003029 hinge residues; other site 177439003030 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 177439003031 active site 177439003032 homotetramer interface [polypeptide binding]; other site 177439003033 homodimer interface [polypeptide binding]; other site 177439003034 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 177439003035 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 177439003036 ATP binding site [chemical binding]; other site 177439003037 putative Mg++ binding site [ion binding]; other site 177439003038 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 177439003039 nucleotide binding region [chemical binding]; other site 177439003040 ATP-binding site [chemical binding]; other site 177439003041 SurA N-terminal domain; Region: SurA_N_3; cl07813 177439003042 periplasmic folding chaperone; Provisional; Region: PRK10788 177439003043 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 177439003044 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 177439003045 DsrC like protein; Region: DsrC; pfam04358 177439003046 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 177439003047 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 177439003048 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 177439003049 Peptidase family M23; Region: Peptidase_M23; pfam01551 177439003050 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 177439003051 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177439003052 ABC transporter; Region: ABC_tran_2; pfam12848 177439003053 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177439003054 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 177439003055 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 177439003056 active site 177439003057 metal binding site [ion binding]; metal-binding site 177439003058 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 177439003059 Catalytic domain of Protein Kinases; Region: PKc; cd00180 177439003060 active site 177439003061 ATP binding site [chemical binding]; other site 177439003062 substrate binding site [chemical binding]; other site 177439003063 activation loop (A-loop); other site 177439003064 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 177439003065 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 177439003066 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 177439003067 tetramer interface [polypeptide binding]; other site 177439003068 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439003069 catalytic residue [active] 177439003070 Uncharacterized conserved protein [Function unknown]; Region: COG1284 177439003071 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 177439003072 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 177439003073 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 177439003074 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 177439003075 nucleotide binding pocket [chemical binding]; other site 177439003076 K-X-D-G motif; other site 177439003077 catalytic site [active] 177439003078 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 177439003079 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 177439003080 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 177439003081 Dimer interface [polypeptide binding]; other site 177439003082 UDP-glucose 4-epimerase; Region: PLN02240 177439003083 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 177439003084 NAD binding site [chemical binding]; other site 177439003085 homodimer interface [polypeptide binding]; other site 177439003086 active site 177439003087 substrate binding site [chemical binding]; other site 177439003088 Endopeptidases belonging to F420-reducing hydrogenases group. These hydrogenases from methanogens are encoded by the fru, frc, or frh genes. Sequence comparison indicates that fruD and frcD gene products from Methanococcus voltae are similar to HycI...; Region: H2MP_F420-Reduc; cd06064 177439003089 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 177439003090 nickel binding site [ion binding]; other site 177439003091 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 177439003092 DNA binding residues [nucleotide binding] 177439003093 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 177439003094 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177439003095 Cysteine-rich domain; Region: CCG; pfam02754 177439003096 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177439003097 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 177439003098 4Fe-4S binding domain; Region: Fer4; pfam00037 177439003099 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177439003100 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 177439003101 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177439003102 4Fe-4S binding domain; Region: Fer4; pfam00037 177439003103 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177439003104 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 177439003105 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 177439003106 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 177439003107 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 177439003108 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 177439003109 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 177439003110 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 177439003111 Methylamine utilisation protein MauE; Region: MauE; pfam07291 177439003112 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 177439003113 active site residue [active] 177439003114 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 177439003115 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 177439003116 trimer interface [polypeptide binding]; other site 177439003117 putative metal binding site [ion binding]; other site 177439003118 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 177439003119 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 177439003120 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177439003121 Cysteine-rich domain; Region: CCG; pfam02754 177439003122 Cysteine-rich domain; Region: CCG; pfam02754 177439003123 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 177439003124 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 177439003125 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177439003126 Cysteine-rich domain; Region: CCG; pfam02754 177439003127 Cysteine-rich domain; Region: CCG; pfam02754 177439003128 FAD binding domain; Region: FAD_binding_4; pfam01565 177439003129 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 177439003130 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 177439003131 L-lactate permease; Region: Lactate_perm; cl00701 177439003132 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177439003133 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 177439003134 active site 177439003135 phosphorylation site [posttranslational modification] 177439003136 intermolecular recognition site; other site 177439003137 dimerization interface [polypeptide binding]; other site 177439003138 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 177439003139 Walker A motif; other site 177439003140 ATP binding site [chemical binding]; other site 177439003141 Walker B motif; other site 177439003142 arginine finger; other site 177439003143 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 177439003144 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177439003145 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 177439003146 putative active site [active] 177439003147 heme pocket [chemical binding]; other site 177439003148 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 177439003149 dimer interface [polypeptide binding]; other site 177439003150 phosphorylation site [posttranslational modification] 177439003151 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 177439003152 ATP binding site [chemical binding]; other site 177439003153 Mg2+ binding site [ion binding]; other site 177439003154 G-X-G motif; other site 177439003155 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177439003156 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 177439003157 active site 177439003158 phosphorylation site [posttranslational modification] 177439003159 intermolecular recognition site; other site 177439003160 dimerization interface [polypeptide binding]; other site 177439003161 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 177439003162 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 177439003163 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 177439003164 NAD binding site [chemical binding]; other site 177439003165 homotetramer interface [polypeptide binding]; other site 177439003166 homodimer interface [polypeptide binding]; other site 177439003167 substrate binding site [chemical binding]; other site 177439003168 active site 177439003169 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177439003170 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 177439003171 dimer interface [polypeptide binding]; other site 177439003172 conserved gate region; other site 177439003173 putative PBP binding loops; other site 177439003174 ABC-ATPase subunit interface; other site 177439003175 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 177439003176 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 177439003177 Walker A/P-loop; other site 177439003178 ATP binding site [chemical binding]; other site 177439003179 Q-loop/lid; other site 177439003180 ABC transporter signature motif; other site 177439003181 Walker B; other site 177439003182 D-loop; other site 177439003183 H-loop/switch region; other site 177439003184 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177439003185 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 177439003186 dimer interface [polypeptide binding]; other site 177439003187 conserved gate region; other site 177439003188 putative PBP binding loops; other site 177439003189 ABC-ATPase subunit interface; other site 177439003190 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 177439003191 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177439003192 substrate binding pocket [chemical binding]; other site 177439003193 membrane-bound complex binding site; other site 177439003194 hinge residues; other site 177439003195 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 177439003196 recombination factor protein RarA; Reviewed; Region: PRK13342 177439003197 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 177439003198 Walker A motif; other site 177439003199 ATP binding site [chemical binding]; other site 177439003200 Walker B motif; other site 177439003201 arginine finger; other site 177439003202 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 177439003203 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 177439003204 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 177439003205 dimer interface [polypeptide binding]; other site 177439003206 active site 177439003207 metal binding site [ion binding]; metal-binding site 177439003208 Phosphagen (guanidino) kinases mostly found in eukaryotes; Region: eukaryotic_phosphagen_kinases; cd07931 177439003209 phosphagen binding site; other site 177439003210 ADP binding site [chemical binding]; other site 177439003211 substrate specificity loop; other site 177439003212 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 177439003213 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177439003214 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 177439003215 active site 177439003216 phosphorylation site [posttranslational modification] 177439003217 intermolecular recognition site; other site 177439003218 dimerization interface [polypeptide binding]; other site 177439003219 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 177439003220 Walker A motif; other site 177439003221 ATP binding site [chemical binding]; other site 177439003222 Walker B motif; other site 177439003223 Domain of unknown function (DUF1995); Region: DUF1995; pfam09353 177439003224 arginine finger; other site 177439003225 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177439003226 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 177439003227 dimer interface [polypeptide binding]; other site 177439003228 phosphorylation site [posttranslational modification] 177439003229 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 177439003230 ATP binding site [chemical binding]; other site 177439003231 Mg2+ binding site [ion binding]; other site 177439003232 G-X-G motif; other site 177439003233 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 177439003234 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 177439003235 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 177439003236 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 177439003237 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 177439003238 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 177439003239 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 177439003240 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 177439003241 NADH dehydrogenase; Region: NADHdh; cl00469 177439003242 hydrogenase 4 subunit B; Validated; Region: PRK06521 177439003243 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 177439003244 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 177439003245 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 177439003246 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177439003247 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 177439003248 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177439003249 putative substrate translocation pore; other site 177439003250 putative pectinesterase; Region: PLN02432; cl01911 177439003251 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 177439003252 Glucokinase; Region: Glucokinase; pfam02685 177439003253 glucokinase, proteobacterial type; Region: glk; TIGR00749 177439003254 methanogenesis imperfect marker protein 11; Region: methan_mark_11; TIGR03280 177439003255 Domain of unknown function (DUF1743); Region: DUF1743; pfam08489 177439003256 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 177439003257 active site residue [active] 177439003258 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 177439003259 Mechanosensitive ion channel; Region: MS_channel; pfam00924 177439003260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 177439003261 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 177439003262 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 177439003263 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 177439003264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 177439003265 Peptidase M15; Region: Peptidase_M15_3; cl01194 177439003266 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 177439003267 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 177439003268 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 177439003269 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 177439003270 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 177439003271 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 177439003272 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439003273 Zn2+ binding site [ion binding]; other site 177439003274 Mg2+ binding site [ion binding]; other site 177439003275 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 177439003276 rod shape-determining protein MreB; Provisional; Region: PRK13927 177439003277 MreB and similar proteins; Region: MreB_like; cd10225 177439003278 nucleotide binding site [chemical binding]; other site 177439003279 Mg binding site [ion binding]; other site 177439003280 putative protofilament interaction site [polypeptide binding]; other site 177439003281 RodZ interaction site [polypeptide binding]; other site 177439003282 rod shape-determining protein MreC; Provisional; Region: PRK13922 177439003283 rod shape-determining protein MreC; Region: MreC; pfam04085 177439003284 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 177439003285 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 177439003286 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 177439003287 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 177439003288 Ferrochelatase; Region: Ferrochelatase; pfam00762 177439003289 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 177439003290 C-terminal domain interface [polypeptide binding]; other site 177439003291 active site 177439003292 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 177439003293 active site 177439003294 N-terminal domain interface [polypeptide binding]; other site 177439003295 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 177439003296 30S subunit binding site; other site 177439003297 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 177439003298 DNA-binding site [nucleotide binding]; DNA binding site 177439003299 RNA-binding motif; other site 177439003300 DNA polymerase I; Provisional; Region: PRK05755 177439003301 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 177439003302 active site 177439003303 metal binding site 1 [ion binding]; metal-binding site 177439003304 putative 5' ssDNA interaction site; other site 177439003305 metal binding site 3; metal-binding site 177439003306 metal binding site 2 [ion binding]; metal-binding site 177439003307 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 177439003308 putative DNA binding site [nucleotide binding]; other site 177439003309 putative metal binding site [ion binding]; other site 177439003310 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 177439003311 active site 177439003312 catalytic site [active] 177439003313 substrate binding site [chemical binding]; other site 177439003314 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 177439003315 active site 177439003316 DNA binding site [nucleotide binding] 177439003317 catalytic site [active] 177439003318 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 177439003319 dimer interface [polypeptide binding]; other site 177439003320 Citrate synthase; Region: Citrate_synt; pfam00285 177439003321 active site 177439003322 citrylCoA binding site [chemical binding]; other site 177439003323 NADH binding [chemical binding]; other site 177439003324 cationic pore residues; other site 177439003325 oxalacetate/citrate binding site [chemical binding]; other site 177439003326 coenzyme A binding site [chemical binding]; other site 177439003327 catalytic triad [active] 177439003328 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 177439003329 thiamine phosphate binding site [chemical binding]; other site 177439003330 active site 177439003331 pyrophosphate binding site [ion binding]; other site 177439003332 HflC protein; Region: hflC; TIGR01932 177439003333 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 177439003334 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 177439003335 HflK protein; Region: hflK; TIGR01933 177439003336 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 177439003337 active site 177439003338 substrate-binding site [chemical binding]; other site 177439003339 metal-binding site [ion binding] 177439003340 GTP binding site [chemical binding]; other site 177439003341 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 177439003342 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 177439003343 active site 177439003344 Riboflavin kinase; Region: Flavokinase; pfam01687 177439003345 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 177439003346 binding surface 177439003347 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177439003348 TPR motif; other site 177439003349 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 177439003350 binding surface 177439003351 TPR motif; other site 177439003352 TPR repeat; Region: TPR_11; pfam13414 177439003353 TPR repeat; Region: TPR_11; pfam13414 177439003354 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177439003355 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 177439003356 binding surface 177439003357 TPR motif; other site 177439003358 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 177439003359 Lumazine binding domain; Region: Lum_binding; pfam00677 177439003360 Lumazine binding domain; Region: Lum_binding; pfam00677 177439003361 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 177439003362 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 177439003363 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 177439003364 dimerization interface [polypeptide binding]; other site 177439003365 active site 177439003366 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 177439003367 homopentamer interface [polypeptide binding]; other site 177439003368 active site 177439003369 transcription antitermination factor NusB; Region: nusB; TIGR01951 177439003370 putative RNA binding site [nucleotide binding]; other site 177439003371 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 177439003372 Acyltransferase family; Region: Acyl_transf_3; pfam01757 177439003373 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 177439003374 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 177439003375 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 177439003376 Ferredoxin [Energy production and conversion]; Region: COG1146 177439003377 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177439003378 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 177439003379 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 177439003380 L-aspartate oxidase; Provisional; Region: PRK06175 177439003381 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 177439003382 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177439003383 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177439003384 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177439003385 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177439003386 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 177439003387 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 177439003388 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 177439003389 tricarballylate utilization protein B; Provisional; Region: PRK15033 177439003390 elongation factor Tu; Reviewed; Region: PRK00049 177439003391 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 177439003392 G1 box; other site 177439003393 GEF interaction site [polypeptide binding]; other site 177439003394 GTP/Mg2+ binding site [chemical binding]; other site 177439003395 Switch I region; other site 177439003396 G2 box; other site 177439003397 G3 box; other site 177439003398 Switch II region; other site 177439003399 G4 box; other site 177439003400 G5 box; other site 177439003401 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 177439003402 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 177439003403 Antibiotic Binding Site [chemical binding]; other site 177439003404 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 177439003405 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 177439003406 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 177439003407 putative homodimer interface [polypeptide binding]; other site 177439003408 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 177439003409 heterodimer interface [polypeptide binding]; other site 177439003410 homodimer interface [polypeptide binding]; other site 177439003411 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 177439003412 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 177439003413 23S rRNA interface [nucleotide binding]; other site 177439003414 L7/L12 interface [polypeptide binding]; other site 177439003415 putative thiostrepton binding site; other site 177439003416 L25 interface [polypeptide binding]; other site 177439003417 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 177439003418 mRNA/rRNA interface [nucleotide binding]; other site 177439003419 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 177439003420 23S rRNA interface [nucleotide binding]; other site 177439003421 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 177439003422 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 177439003423 peripheral dimer interface [polypeptide binding]; other site 177439003424 core dimer interface [polypeptide binding]; other site 177439003425 L10 interface [polypeptide binding]; other site 177439003426 L11 interface [polypeptide binding]; other site 177439003427 putative EF-Tu interaction site [polypeptide binding]; other site 177439003428 putative EF-G interaction site [polypeptide binding]; other site 177439003429 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 177439003430 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 177439003431 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 177439003432 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 177439003433 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 177439003434 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 177439003435 RPB3 interaction site [polypeptide binding]; other site 177439003436 RPB1 interaction site [polypeptide binding]; other site 177439003437 RPB11 interaction site [polypeptide binding]; other site 177439003438 RPB10 interaction site [polypeptide binding]; other site 177439003439 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 177439003440 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 177439003441 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 177439003442 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 177439003443 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 177439003444 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 177439003445 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 177439003446 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 177439003447 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 177439003448 DNA binding site [nucleotide binding] 177439003449 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 177439003450 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 177439003451 S17 interaction site [polypeptide binding]; other site 177439003452 S8 interaction site; other site 177439003453 16S rRNA interaction site [nucleotide binding]; other site 177439003454 streptomycin interaction site [chemical binding]; other site 177439003455 23S rRNA interaction site [nucleotide binding]; other site 177439003456 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 177439003457 30S ribosomal protein S7; Validated; Region: PRK05302 177439003458 elongation factor G; Reviewed; Region: PRK00007 177439003459 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 177439003460 G1 box; other site 177439003461 putative GEF interaction site [polypeptide binding]; other site 177439003462 GTP/Mg2+ binding site [chemical binding]; other site 177439003463 Switch I region; other site 177439003464 G2 box; other site 177439003465 G3 box; other site 177439003466 Switch II region; other site 177439003467 G4 box; other site 177439003468 G5 box; other site 177439003469 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 177439003470 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cd01680 177439003471 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 177439003472 elongation factor Tu; Reviewed; Region: PRK00049 177439003473 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 177439003474 G1 box; other site 177439003475 GEF interaction site [polypeptide binding]; other site 177439003476 GTP/Mg2+ binding site [chemical binding]; other site 177439003477 Switch I region; other site 177439003478 G2 box; other site 177439003479 G3 box; other site 177439003480 Switch II region; other site 177439003481 G4 box; other site 177439003482 G5 box; other site 177439003483 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 177439003484 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 177439003485 Antibiotic Binding Site [chemical binding]; other site 177439003486 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 177439003487 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 177439003488 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 177439003489 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 177439003490 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 177439003491 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 177439003492 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 177439003493 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 177439003494 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 177439003495 putative translocon binding site; other site 177439003496 protein-rRNA interface [nucleotide binding]; other site 177439003497 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 177439003498 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 177439003499 G-X-X-G motif; other site 177439003500 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 177439003501 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 177439003502 23S rRNA interface [nucleotide binding]; other site 177439003503 5S rRNA interface [nucleotide binding]; other site 177439003504 putative antibiotic binding site [chemical binding]; other site 177439003505 L25 interface [polypeptide binding]; other site 177439003506 L27 interface [polypeptide binding]; other site 177439003507 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 177439003508 putative translocon interaction site; other site 177439003509 23S rRNA interface [nucleotide binding]; other site 177439003510 signal recognition particle (SRP54) interaction site; other site 177439003511 L23 interface [polypeptide binding]; other site 177439003512 trigger factor interaction site; other site 177439003513 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 177439003514 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 177439003515 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 177439003516 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 177439003517 RNA binding site [nucleotide binding]; other site 177439003518 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 177439003519 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 177439003520 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 177439003521 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 177439003522 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 177439003523 similar to 50S ribosomal protein L6; contains premature stop codon 177439003524 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 177439003525 5S rRNA interface [nucleotide binding]; other site 177439003526 23S rRNA interface [nucleotide binding]; other site 177439003527 L5 interface [polypeptide binding]; other site 177439003528 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 177439003529 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 177439003530 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 177439003531 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 177439003532 23S rRNA binding site [nucleotide binding]; other site 177439003533 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 177439003534 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 177439003535 SecY translocase; Region: SecY; pfam00344 177439003536 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 177439003537 active site 177439003538 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 177439003539 rRNA binding site [nucleotide binding]; other site 177439003540 predicted 30S ribosome binding site; other site 177439003541 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 177439003542 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 177439003543 30S ribosomal protein S13; Region: bact_S13; TIGR03631 177439003544 30S ribosomal protein S11; Validated; Region: PRK05309 177439003545 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 177439003546 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 177439003547 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 177439003548 RNA binding surface [nucleotide binding]; other site 177439003549 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 177439003550 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 177439003551 alphaNTD homodimer interface [polypeptide binding]; other site 177439003552 alphaNTD - beta interaction site [polypeptide binding]; other site 177439003553 alphaNTD - beta' interaction site [polypeptide binding]; other site 177439003554 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 177439003555 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 177439003556 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 177439003557 rRNA interaction site [nucleotide binding]; other site 177439003558 S8 interaction site; other site 177439003559 elongation factor Ts; Reviewed; Region: tsf; PRK12332 177439003560 UBA/TS-N domain; Region: UBA; pfam00627 177439003561 Elongation factor TS; Region: EF_TS; pfam00889 177439003562 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 177439003563 putative nucleotide binding site [chemical binding]; other site 177439003564 uridine monophosphate binding site [chemical binding]; other site 177439003565 homohexameric interface [polypeptide binding]; other site 177439003566 ribosome recycling factor; Reviewed; Region: frr; PRK00083 177439003567 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 177439003568 hinge region; other site 177439003569 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 177439003570 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 177439003571 catalytic residue [active] 177439003572 putative FPP diphosphate binding site; other site 177439003573 putative FPP binding hydrophobic cleft; other site 177439003574 dimer interface [polypeptide binding]; other site 177439003575 putative IPP diphosphate binding site; other site 177439003576 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 177439003577 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 177439003578 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 177439003579 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 177439003580 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 177439003581 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 177439003582 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 177439003583 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 177439003584 active site 177439003585 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 177439003586 protein binding site [polypeptide binding]; other site 177439003587 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 177439003588 putative substrate binding region [chemical binding]; other site 177439003589 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 177439003590 Glycoprotease family; Region: Peptidase_M22; pfam00814 177439003591 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 177439003592 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 177439003593 prolyl-tRNA synthetase; Provisional; Region: PRK09194 177439003594 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 177439003595 dimer interface [polypeptide binding]; other site 177439003596 motif 1; other site 177439003597 active site 177439003598 motif 2; other site 177439003599 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 177439003600 putative deacylase active site [active] 177439003601 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 177439003602 active site 177439003603 motif 3; other site 177439003604 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 177439003605 anticodon binding site; other site 177439003606 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 177439003607 HD domain; Region: HD_4; pfam13328 177439003608 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 177439003609 synthetase active site [active] 177439003610 NTP binding site [chemical binding]; other site 177439003611 metal binding site [ion binding]; metal-binding site 177439003612 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 177439003613 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 177439003614 Smr domain; Region: Smr; pfam01713 177439003615 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 177439003616 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 177439003617 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 177439003618 Predicted permeases [General function prediction only]; Region: COG0795 177439003619 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 177439003620 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 177439003621 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 177439003622 DHH family; Region: DHH; pfam01368 177439003623 Fic family protein [Function unknown]; Region: COG3177 177439003624 Fic/DOC family; Region: Fic; pfam02661 177439003625 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 177439003626 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 177439003627 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 177439003628 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 177439003629 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177439003630 Walker A/P-loop; other site 177439003631 ATP binding site [chemical binding]; other site 177439003632 Q-loop/lid; other site 177439003633 ABC transporter signature motif; other site 177439003634 Walker B; other site 177439003635 D-loop; other site 177439003636 H-loop/switch region; other site 177439003637 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 177439003638 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 177439003639 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 177439003640 dimer interface [polypeptide binding]; other site 177439003641 conserved gate region; other site 177439003642 putative PBP binding loops; other site 177439003643 ABC-ATPase subunit interface; other site 177439003644 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 177439003645 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177439003646 Walker A/P-loop; other site 177439003647 ATP binding site [chemical binding]; other site 177439003648 Q-loop/lid; other site 177439003649 ABC transporter signature motif; other site 177439003650 Walker B; other site 177439003651 D-loop; other site 177439003652 H-loop/switch region; other site 177439003653 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 177439003654 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 177439003655 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 177439003656 dimer interface [polypeptide binding]; other site 177439003657 conserved gate region; other site 177439003658 putative PBP binding loops; other site 177439003659 ABC-ATPase subunit interface; other site 177439003660 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 177439003661 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 177439003662 active site 177439003663 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 177439003664 Fic family protein [Function unknown]; Region: COG3177 177439003665 Fic/DOC family; Region: Fic; pfam02661 177439003666 DctM-like transporters; Region: DctM; pfam06808 177439003667 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 177439003668 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 177439003669 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177439003670 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 177439003671 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 177439003672 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 177439003673 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 177439003674 motif II; other site 177439003675 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 177439003676 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 177439003677 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 177439003678 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 177439003679 NAD(P) binding site [chemical binding]; other site 177439003680 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 177439003681 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 177439003682 4Fe-4S binding domain; Region: Fer4; pfam00037 177439003683 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 177439003684 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 177439003685 dimer interface [polypeptide binding]; other site 177439003686 PYR/PP interface [polypeptide binding]; other site 177439003687 TPP binding site [chemical binding]; other site 177439003688 substrate binding site [chemical binding]; other site 177439003689 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 177439003690 putative dimer interface [polypeptide binding]; other site 177439003691 TPP-binding site [chemical binding]; other site 177439003692 acyl-CoA synthetase; Provisional; Region: PRK12583 177439003693 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177439003694 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 177439003695 acyl-activating enzyme (AAE) consensus motif; other site 177439003696 putative AMP binding site [chemical binding]; other site 177439003697 putative active site [active] 177439003698 putative CoA binding site [chemical binding]; other site 177439003699 PilZ domain; Region: PilZ; pfam07238 177439003700 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 177439003701 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 177439003702 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 177439003703 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 177439003704 dimer interface [polypeptide binding]; other site 177439003705 conserved gate region; other site 177439003706 putative PBP binding loops; other site 177439003707 ABC-ATPase subunit interface; other site 177439003708 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 177439003709 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 177439003710 dimer interface [polypeptide binding]; other site 177439003711 conserved gate region; other site 177439003712 putative PBP binding loops; other site 177439003713 ABC-ATPase subunit interface; other site 177439003714 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 177439003715 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177439003716 Walker A/P-loop; other site 177439003717 ATP binding site [chemical binding]; other site 177439003718 Q-loop/lid; other site 177439003719 ABC transporter signature motif; other site 177439003720 Walker B; other site 177439003721 D-loop; other site 177439003722 H-loop/switch region; other site 177439003723 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177439003724 Walker A/P-loop; other site 177439003725 ATP binding site [chemical binding]; other site 177439003726 Q-loop/lid; other site 177439003727 ABC transporter signature motif; other site 177439003728 Walker B; other site 177439003729 D-loop; other site 177439003730 H-loop/switch region; other site 177439003731 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 177439003732 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 177439003733 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177439003734 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 177439003735 ligand binding site [chemical binding]; other site 177439003736 Caspase domain; Region: Peptidase_C14; pfam00656 177439003737 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 177439003738 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 177439003739 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 177439003740 DNA binding residues [nucleotide binding] 177439003741 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 177439003742 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 177439003743 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 177439003744 N-acetyl-D-glucosamine binding site [chemical binding]; other site 177439003745 catalytic residue [active] 177439003746 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 177439003747 HPP family; Region: HPP; pfam04982 177439003748 hybrid cluster protein; Provisional; Region: PRK05290 177439003749 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 177439003750 ACS interaction site; other site 177439003751 CODH interaction site; other site 177439003752 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 177439003753 ACS interaction site; other site 177439003754 CODH interaction site; other site 177439003755 metal cluster binding site [ion binding]; other site 177439003756 hybrid cluster protein; Provisional; Region: PRK05290 177439003757 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 177439003758 ACS interaction site; other site 177439003759 CODH interaction site; other site 177439003760 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 177439003761 ACS interaction site; other site 177439003762 CODH interaction site; other site 177439003763 metal cluster binding site [ion binding]; other site 177439003764 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 177439003765 methionine sulfoxide reductase B; Provisional; Region: PRK00222 177439003766 SelR domain; Region: SelR; pfam01641 177439003767 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 177439003768 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177439003769 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 177439003770 Walker A/P-loop; other site 177439003771 ATP binding site [chemical binding]; other site 177439003772 Q-loop/lid; other site 177439003773 ABC transporter signature motif; other site 177439003774 Walker B; other site 177439003775 D-loop; other site 177439003776 H-loop/switch region; other site 177439003777 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 177439003778 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 177439003779 dimer interface [polypeptide binding]; other site 177439003780 conserved gate region; other site 177439003781 ABC-ATPase subunit interface; other site 177439003782 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 177439003783 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 177439003784 dimer interface [polypeptide binding]; other site 177439003785 conserved gate region; other site 177439003786 putative PBP binding loops; other site 177439003787 ABC-ATPase subunit interface; other site 177439003788 PBP superfamily domain; Region: PBP_like_2; cl17296 177439003789 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 177439003790 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 177439003791 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177439003792 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 177439003793 Domain of unknown function DUF20; Region: UPF0118; pfam01594 177439003794 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 177439003795 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 177439003796 Walker A/P-loop; other site 177439003797 ATP binding site [chemical binding]; other site 177439003798 Q-loop/lid; other site 177439003799 ABC transporter signature motif; other site 177439003800 Walker B; other site 177439003801 D-loop; other site 177439003802 H-loop/switch region; other site 177439003803 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177439003804 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 177439003805 substrate binding pocket [chemical binding]; other site 177439003806 membrane-bound complex binding site; other site 177439003807 hinge residues; other site 177439003808 Predicted permeases [General function prediction only]; Region: COG0679 177439003809 Transcriptional regulator [Transcription]; Region: LysR; COG0583 177439003810 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177439003811 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 177439003812 putative dimerization interface [polypeptide binding]; other site 177439003813 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 177439003814 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 177439003815 dimer interface [polypeptide binding]; other site 177439003816 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439003817 catalytic residue [active] 177439003818 serine O-acetyltransferase; Region: cysE; TIGR01172 177439003819 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 177439003820 trimer interface [polypeptide binding]; other site 177439003821 active site 177439003822 substrate binding site [chemical binding]; other site 177439003823 CoA binding site [chemical binding]; other site 177439003824 Methyltransferase domain; Region: Methyltransf_23; pfam13489 177439003825 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 177439003826 S-adenosylmethionine binding site [chemical binding]; other site 177439003827 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 177439003828 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 177439003829 TPR repeat; Region: TPR_11; pfam13414 177439003830 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 177439003831 binding surface 177439003832 TPR motif; other site 177439003833 TPR repeat; Region: TPR_11; pfam13414 177439003834 ribonuclease III; Reviewed; Region: rnc; PRK00102 177439003835 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 177439003836 dimerization interface [polypeptide binding]; other site 177439003837 active site 177439003838 metal binding site [ion binding]; metal-binding site 177439003839 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 177439003840 dsRNA binding site [nucleotide binding]; other site 177439003841 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 177439003842 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 177439003843 FeS/SAM binding site; other site 177439003844 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 177439003845 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177439003846 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177439003847 ABC transporter; Region: ABC_tran_2; pfam12848 177439003848 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177439003849 MOSC domain; Region: MOSC; pfam03473 177439003850 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177439003851 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_9; cd04666 177439003852 nudix motif; other site 177439003853 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 177439003854 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 177439003855 P-loop; other site 177439003856 Magnesium ion binding site [ion binding]; other site 177439003857 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 177439003858 Magnesium ion binding site [ion binding]; other site 177439003859 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 177439003860 polyphosphate kinase; Provisional; Region: PRK05443 177439003861 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 177439003862 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 177439003863 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 177439003864 putative domain interface [polypeptide binding]; other site 177439003865 putative active site [active] 177439003866 catalytic site [active] 177439003867 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 177439003868 putative domain interface [polypeptide binding]; other site 177439003869 putative active site [active] 177439003870 catalytic site [active] 177439003871 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 177439003872 putative hydrophobic ligand binding site [chemical binding]; other site 177439003873 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177439003874 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 177439003875 NAD(P) binding site [chemical binding]; other site 177439003876 active site 177439003877 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 177439003878 PAS domain; Region: PAS; smart00091 177439003879 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 177439003880 dimer interface [polypeptide binding]; other site 177439003881 phosphorylation site [posttranslational modification] 177439003882 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 177439003883 ATP binding site [chemical binding]; other site 177439003884 Mg2+ binding site [ion binding]; other site 177439003885 G-X-G motif; other site 177439003886 Response regulator receiver domain; Region: Response_reg; pfam00072 177439003887 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 177439003888 active site 177439003889 phosphorylation site [posttranslational modification] 177439003890 intermolecular recognition site; other site 177439003891 dimerization interface [polypeptide binding]; other site 177439003892 conserved hypothetical protein; Region: TIGR02285 177439003893 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 177439003894 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 177439003895 putative DNA binding site [nucleotide binding]; other site 177439003896 putative Zn2+ binding site [ion binding]; other site 177439003897 AsnC family; Region: AsnC_trans_reg; pfam01037 177439003898 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 177439003899 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 177439003900 Rubredoxin [Energy production and conversion]; Region: COG1773 177439003901 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 177439003902 iron binding site [ion binding]; other site 177439003903 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 177439003904 Ion transport protein; Region: Ion_trans; pfam00520 177439003905 Ion channel; Region: Ion_trans_2; pfam07885 177439003906 FOG: CBS domain [General function prediction only]; Region: COG0517 177439003907 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 177439003908 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 177439003909 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 177439003910 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 177439003911 dimer interface [polypeptide binding]; other site 177439003912 PYR/PP interface [polypeptide binding]; other site 177439003913 TPP binding site [chemical binding]; other site 177439003914 substrate binding site [chemical binding]; other site 177439003915 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 177439003916 TPP-binding site; other site 177439003917 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 177439003918 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 177439003919 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177439003920 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 177439003921 acyl-activating enzyme (AAE) consensus motif; other site 177439003922 AMP binding site [chemical binding]; other site 177439003923 active site 177439003924 CoA binding site [chemical binding]; other site 177439003925 ACT domain-containing protein [General function prediction only]; Region: COG4747 177439003926 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 177439003927 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 177439003928 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177439003929 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 177439003930 TM-ABC transporter signature motif; other site 177439003931 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 177439003932 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 177439003933 TM-ABC transporter signature motif; other site 177439003934 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 177439003935 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 177439003936 Walker A/P-loop; other site 177439003937 ATP binding site [chemical binding]; other site 177439003938 Q-loop/lid; other site 177439003939 ABC transporter signature motif; other site 177439003940 Walker B; other site 177439003941 D-loop; other site 177439003942 H-loop/switch region; other site 177439003943 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 177439003944 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 177439003945 Walker A/P-loop; other site 177439003946 ATP binding site [chemical binding]; other site 177439003947 Q-loop/lid; other site 177439003948 ABC transporter signature motif; other site 177439003949 Walker B; other site 177439003950 D-loop; other site 177439003951 H-loop/switch region; other site 177439003952 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 177439003953 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177439003954 acyl-activating enzyme (AAE) consensus motif; other site 177439003955 AMP binding site [chemical binding]; other site 177439003956 active site 177439003957 CoA binding site [chemical binding]; other site 177439003958 ribonuclease PH; Reviewed; Region: rph; PRK00173 177439003959 Ribonuclease PH; Region: RNase_PH_bact; cd11362 177439003960 hexamer interface [polypeptide binding]; other site 177439003961 active site 177439003962 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 177439003963 amino acid carrier protein; Region: agcS; TIGR00835 177439003964 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 177439003965 amino acid carrier protein; Region: agcS; TIGR00835 177439003966 Cache domain; Region: Cache_1; pfam02743 177439003967 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 177439003968 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 177439003969 dimerization interface [polypeptide binding]; other site 177439003970 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439003971 dimer interface [polypeptide binding]; other site 177439003972 putative CheW interface [polypeptide binding]; other site 177439003973 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 177439003974 Carbon starvation protein CstA; Region: CstA; pfam02554 177439003975 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 177439003976 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439003977 Zn2+ binding site [ion binding]; other site 177439003978 Mg2+ binding site [ion binding]; other site 177439003979 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 177439003980 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 177439003981 substrate binding site [chemical binding]; other site 177439003982 active site 177439003983 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 177439003984 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 177439003985 FeS/SAM binding site; other site 177439003986 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 177439003987 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 177439003988 histidinol dehydrogenase; Region: hisD; TIGR00069 177439003989 NAD binding site [chemical binding]; other site 177439003990 dimerization interface [polypeptide binding]; other site 177439003991 product binding site; other site 177439003992 substrate binding site [chemical binding]; other site 177439003993 zinc binding site [ion binding]; other site 177439003994 catalytic residues [active] 177439003995 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 177439003996 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 177439003997 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 177439003998 tartrate dehydrogenase; Region: TTC; TIGR02089 177439003999 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177439004000 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 177439004001 ligand binding site [chemical binding]; other site 177439004002 flexible hinge region; other site 177439004003 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 177439004004 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177439004005 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 177439004006 4Fe-4S binding domain; Region: Fer4_5; pfam12801 177439004007 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 177439004008 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 177439004009 Pirin-related protein [General function prediction only]; Region: COG1741 177439004010 Pirin; Region: Pirin; pfam02678 177439004011 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 177439004012 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 177439004013 YceI-like domain; Region: YceI; pfam04264 177439004014 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 177439004015 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 177439004016 S-adenosylmethionine binding site [chemical binding]; other site 177439004017 YaeQ protein; Region: YaeQ; pfam07152 177439004018 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 177439004019 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 177439004020 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 177439004021 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 177439004022 amino acid carrier protein; Region: agcS; TIGR00835 177439004023 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 177439004024 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 177439004025 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 177439004026 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 177439004027 diiron binding motif [ion binding]; other site 177439004028 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 177439004029 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177439004030 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 177439004031 Peptidase family M48; Region: Peptidase_M48; pfam01435 177439004032 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 177439004033 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 177439004034 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 177439004035 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 177439004036 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 177439004037 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 177439004038 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 177439004039 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 177439004040 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 177439004041 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 177439004042 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 177439004043 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 177439004044 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177439004045 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 177439004046 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 177439004047 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 177439004048 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 177439004049 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 177439004050 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; pfam00507 177439004051 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 177439004052 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 177439004053 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177439004054 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 177439004055 putative dimerization interface [polypeptide binding]; other site 177439004056 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 177439004057 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 177439004058 dimerization interface 3.5A [polypeptide binding]; other site 177439004059 active site 177439004060 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 177439004061 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 177439004062 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 177439004063 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 177439004064 23S rRNA interface [nucleotide binding]; other site 177439004065 L3 interface [polypeptide binding]; other site 177439004066 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 177439004067 putative active site pocket [active] 177439004068 4-fold oligomerization interface [polypeptide binding]; other site 177439004069 metal binding residues [ion binding]; metal-binding site 177439004070 3-fold/trimer interface [polypeptide binding]; other site 177439004071 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 177439004072 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 177439004073 Ligand Binding Site [chemical binding]; other site 177439004074 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 177439004075 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 177439004076 putative dimer interface [polypeptide binding]; other site 177439004077 putative anticodon binding site; other site 177439004078 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 177439004079 homodimer interface [polypeptide binding]; other site 177439004080 motif 1; other site 177439004081 motif 2; other site 177439004082 active site 177439004083 motif 3; other site 177439004084 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 177439004085 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 177439004086 S-adenosylmethionine binding site [chemical binding]; other site 177439004087 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 177439004088 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177439004089 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 177439004090 acyl-activating enzyme (AAE) consensus motif; other site 177439004091 acyl-activating enzyme (AAE) consensus motif; other site 177439004092 putative AMP binding site [chemical binding]; other site 177439004093 putative active site [active] 177439004094 putative CoA binding site [chemical binding]; other site 177439004095 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 177439004096 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177439004097 EamA-like transporter family; Region: EamA; pfam00892 177439004098 EamA-like transporter family; Region: EamA; pfam00892 177439004099 MOSC domain; Region: MOSC; pfam03473 177439004100 CHASE4 domain; Region: CHASE4; cl01308 177439004101 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 177439004102 Ligand Binding Site [chemical binding]; other site 177439004103 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 177439004104 putative deacylase active site [active] 177439004105 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 177439004106 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 177439004107 Part of AAA domain; Region: AAA_19; pfam13245 177439004108 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 177439004109 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 177439004110 AAA domain; Region: AAA_30; pfam13604 177439004111 Family description; Region: UvrD_C_2; pfam13538 177439004112 Predicted permeases [General function prediction only]; Region: RarD; COG2962 177439004113 Predicted permeases [General function prediction only]; Region: RarD; COG2962 177439004114 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 177439004115 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 177439004116 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 177439004117 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 177439004118 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 177439004119 dimer interface [polypeptide binding]; other site 177439004120 conserved gate region; other site 177439004121 putative PBP binding loops; other site 177439004122 ABC-ATPase subunit interface; other site 177439004123 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 177439004124 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439004125 Walker A/P-loop; other site 177439004126 ATP binding site [chemical binding]; other site 177439004127 Q-loop/lid; other site 177439004128 ABC transporter signature motif; other site 177439004129 Walker B; other site 177439004130 D-loop; other site 177439004131 H-loop/switch region; other site 177439004132 TOBE domain; Region: TOBE_2; pfam08402 177439004133 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 177439004134 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 177439004135 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177439004136 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177439004137 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 177439004138 putative FMN binding site [chemical binding]; other site 177439004139 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 177439004140 DctM-like transporters; Region: DctM; pfam06808 177439004141 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 177439004142 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177439004143 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177439004144 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 177439004145 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 177439004146 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 177439004147 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 177439004148 Walker A/P-loop; other site 177439004149 ATP binding site [chemical binding]; other site 177439004150 Q-loop/lid; other site 177439004151 ABC transporter signature motif; other site 177439004152 Walker B; other site 177439004153 D-loop; other site 177439004154 H-loop/switch region; other site 177439004155 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 177439004156 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 177439004157 dimer interface [polypeptide binding]; other site 177439004158 conserved gate region; other site 177439004159 putative PBP binding loops; other site 177439004160 ABC-ATPase subunit interface; other site 177439004161 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 177439004162 NMT1-like family; Region: NMT1_2; pfam13379 177439004163 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 177439004164 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 177439004165 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 177439004166 pyruvate phosphate dikinase; Provisional; Region: PRK09279 177439004167 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 177439004168 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 177439004169 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 177439004170 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 177439004171 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 177439004172 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 177439004173 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 177439004174 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 177439004175 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 177439004176 putative active site [active] 177439004177 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 177439004178 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 177439004179 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 177439004180 active site 177439004181 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 177439004182 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 177439004183 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 177439004184 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 177439004185 active site 177439004186 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 177439004187 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 177439004188 pentamer interface [polypeptide binding]; other site 177439004189 dodecaamer interface [polypeptide binding]; other site 177439004190 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 177439004191 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 177439004192 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 177439004193 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 177439004194 dimer interface [polypeptide binding]; other site 177439004195 active site 177439004196 metal binding site [ion binding]; metal-binding site 177439004197 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 177439004198 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 177439004199 active site 177439004200 FMN binding site [chemical binding]; other site 177439004201 substrate binding site [chemical binding]; other site 177439004202 putative catalytic residue [active] 177439004203 Predicted GTPases [General function prediction only]; Region: COG1162 177439004204 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 177439004205 GTPase/Zn-binding domain interface [polypeptide binding]; other site 177439004206 GTP/Mg2+ binding site [chemical binding]; other site 177439004207 G4 box; other site 177439004208 G5 box; other site 177439004209 G1 box; other site 177439004210 Switch I region; other site 177439004211 G2 box; other site 177439004212 G3 box; other site 177439004213 Switch II region; other site 177439004214 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 177439004215 homotrimer interaction site [polypeptide binding]; other site 177439004216 putative active site [active] 177439004217 putative selenium metabolism hydrolase; Region: selenium_YgeY; TIGR03526 177439004218 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 177439004219 putative metal binding site [ion binding]; other site 177439004220 putative dimer interface [polypeptide binding]; other site 177439004221 BCCT family transporter; Region: BCCT; pfam02028 177439004222 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 177439004223 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 177439004224 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 177439004225 active site 177439004226 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 177439004227 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 177439004228 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177439004229 catalytic residue [active] 177439004230 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 177439004231 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 177439004232 Walker A motif; other site 177439004233 ATP binding site [chemical binding]; other site 177439004234 Walker B motif; other site 177439004235 arginine finger; other site 177439004236 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 177439004237 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 177439004238 agmatinase; Region: agmatinase; TIGR01230 177439004239 oligomer interface [polypeptide binding]; other site 177439004240 putative active site [active] 177439004241 Mn binding site [ion binding]; other site 177439004242 BCCT family transporter; Region: BCCT; pfam02028 177439004243 Transcriptional regulators [Transcription]; Region: FadR; COG2186 177439004244 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177439004245 DNA-binding site [nucleotide binding]; DNA binding site 177439004246 FCD domain; Region: FCD; pfam07729 177439004247 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 177439004248 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 177439004249 Walker A/P-loop; other site 177439004250 ATP binding site [chemical binding]; other site 177439004251 Q-loop/lid; other site 177439004252 ABC transporter signature motif; other site 177439004253 Walker B; other site 177439004254 D-loop; other site 177439004255 H-loop/switch region; other site 177439004256 TOBE domain; Region: TOBE_2; pfam08402 177439004257 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 177439004258 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 177439004259 dimer interface [polypeptide binding]; other site 177439004260 conserved gate region; other site 177439004261 putative PBP binding loops; other site 177439004262 ABC-ATPase subunit interface; other site 177439004263 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 177439004264 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 177439004265 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 177439004266 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; cl17257 177439004267 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 177439004268 DNA binding residues [nucleotide binding] 177439004269 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 177439004270 catalytic motif [active] 177439004271 Catalytic residue [active] 177439004272 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 177439004273 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439004274 Zn2+ binding site [ion binding]; other site 177439004275 Mg2+ binding site [ion binding]; other site 177439004276 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 177439004277 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 177439004278 HD domain; Region: HD_4; pfam13328 177439004279 NMT1/THI5 like; Region: NMT1; pfam09084 177439004280 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 177439004281 Cache domain; Region: Cache_1; pfam02743 177439004282 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 177439004283 dimerization interface [polypeptide binding]; other site 177439004284 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 177439004285 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 177439004286 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 177439004287 xanthine permease; Region: pbuX; TIGR03173 177439004288 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 177439004289 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 177439004290 ATP binding site [chemical binding]; other site 177439004291 Mg++ binding site [ion binding]; other site 177439004292 motif III; other site 177439004293 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 177439004294 nucleotide binding region [chemical binding]; other site 177439004295 ATP-binding site [chemical binding]; other site 177439004296 Restriction endonuclease; Region: Mrr_cat; pfam04471 177439004297 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 177439004298 IHF - DNA interface [nucleotide binding]; other site 177439004299 IHF dimer interface [polypeptide binding]; other site 177439004300 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 177439004301 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 177439004302 putative tRNA-binding site [nucleotide binding]; other site 177439004303 B3/4 domain; Region: B3_4; pfam03483 177439004304 tRNA synthetase B5 domain; Region: B5; smart00874 177439004305 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 177439004306 dimer interface [polypeptide binding]; other site 177439004307 motif 1; other site 177439004308 motif 3; other site 177439004309 motif 2; other site 177439004310 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 177439004311 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 177439004312 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 177439004313 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 177439004314 dimer interface [polypeptide binding]; other site 177439004315 motif 1; other site 177439004316 active site 177439004317 motif 2; other site 177439004318 motif 3; other site 177439004319 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 177439004320 23S rRNA binding site [nucleotide binding]; other site 177439004321 L21 binding site [polypeptide binding]; other site 177439004322 L13 binding site [polypeptide binding]; other site 177439004323 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 177439004324 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 177439004325 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 177439004326 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 177439004327 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 177439004328 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 177439004329 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 177439004330 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 177439004331 active site 177439004332 dimer interface [polypeptide binding]; other site 177439004333 motif 1; other site 177439004334 motif 2; other site 177439004335 motif 3; other site 177439004336 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 177439004337 anticodon binding site; other site 177439004338 hypothetical protein; Validated; Region: PRK00153 177439004339 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 177439004340 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14965 177439004341 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 177439004342 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 177439004343 Walker A motif; other site 177439004344 ATP binding site [chemical binding]; other site 177439004345 Walker B motif; other site 177439004346 arginine finger; other site 177439004347 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 177439004348 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 177439004349 NAD binding site [chemical binding]; other site 177439004350 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177439004351 EamA-like transporter family; Region: EamA; pfam00892 177439004352 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 177439004353 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 177439004354 substrate binding pocket [chemical binding]; other site 177439004355 membrane-bound complex binding site; other site 177439004356 hinge residues; other site 177439004357 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 177439004358 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 177439004359 conserved gate region; other site 177439004360 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 177439004361 dimer interface [polypeptide binding]; other site 177439004362 conserved gate region; other site 177439004363 putative PBP binding loops; other site 177439004364 ABC-ATPase subunit interface; other site 177439004365 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177439004366 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 177439004367 dimer interface [polypeptide binding]; other site 177439004368 conserved gate region; other site 177439004369 putative PBP binding loops; other site 177439004370 ABC-ATPase subunit interface; other site 177439004371 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 177439004372 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 177439004373 Walker A/P-loop; other site 177439004374 ATP binding site [chemical binding]; other site 177439004375 Q-loop/lid; other site 177439004376 ABC transporter signature motif; other site 177439004377 Walker B; other site 177439004378 D-loop; other site 177439004379 H-loop/switch region; other site 177439004380 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 177439004381 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 177439004382 nucleoside/Zn binding site; other site 177439004383 dimer interface [polypeptide binding]; other site 177439004384 catalytic motif [active] 177439004385 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 177439004386 ligand binding site [chemical binding]; other site 177439004387 flexible hinge region; other site 177439004388 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 177439004389 active site residue [active] 177439004390 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 177439004391 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 177439004392 transmembrane helices; other site 177439004393 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 177439004394 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 177439004395 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 177439004396 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 177439004397 active site 177439004398 Zn binding site [ion binding]; other site 177439004399 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 177439004400 TRAM domain; Region: TRAM; pfam01938 177439004401 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 177439004402 S-adenosylmethionine binding site [chemical binding]; other site 177439004403 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 177439004404 Surface antigen; Region: Bac_surface_Ag; pfam01103 177439004405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 177439004406 Family of unknown function (DUF490); Region: DUF490; pfam04357 177439004407 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177439004408 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 177439004409 active site 177439004410 phosphorylation site [posttranslational modification] 177439004411 intermolecular recognition site; other site 177439004412 dimerization interface [polypeptide binding]; other site 177439004413 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 177439004414 Walker A motif; other site 177439004415 ATP binding site [chemical binding]; other site 177439004416 Walker B motif; other site 177439004417 arginine finger; other site 177439004418 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177439004419 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 177439004420 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 177439004421 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439004422 homodimer interface [polypeptide binding]; other site 177439004423 catalytic residue [active] 177439004424 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 177439004425 O-Antigen ligase; Region: Wzy_C; pfam04932 177439004426 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 177439004427 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 177439004428 Pilin (bacterial filament); Region: Pilin; pfam00114 177439004429 putative major pilin subunit; Provisional; Region: PRK10574 177439004430 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 177439004431 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 177439004432 Type II transport protein GspH; Region: GspH; pfam12019 177439004433 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 177439004434 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 177439004435 metal binding site [ion binding]; metal-binding site 177439004436 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 177439004437 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 177439004438 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 177439004439 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 177439004440 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 177439004441 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 177439004442 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 177439004443 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 177439004444 metal-binding site [ion binding] 177439004445 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 177439004446 metal-binding site [ion binding] 177439004447 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 177439004448 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 177439004449 metal-binding site [ion binding] 177439004450 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 177439004451 Soluble P-type ATPase [General function prediction only]; Region: COG4087 177439004452 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 177439004453 ATP-sulfurylase; Region: ATPS; cd00517 177439004454 active site 177439004455 HXXH motif; other site 177439004456 flexible loop; other site 177439004457 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 177439004458 active site 177439004459 dimer interface [polypeptide binding]; other site 177439004460 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 177439004461 metal binding site [ion binding]; metal-binding site 177439004462 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 177439004463 nucleoside/Zn binding site; other site 177439004464 dimer interface [polypeptide binding]; other site 177439004465 catalytic motif [active] 177439004466 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 177439004467 Radical SAM superfamily; Region: Radical_SAM; pfam04055 177439004468 FeS/SAM binding site; other site 177439004469 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 177439004470 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 177439004471 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 177439004472 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 177439004473 GDP-binding site [chemical binding]; other site 177439004474 ACT binding site; other site 177439004475 IMP binding site; other site 177439004476 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 177439004477 chaperone protein DnaJ; Provisional; Region: PRK10767 177439004478 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 177439004479 HSP70 interaction site [polypeptide binding]; other site 177439004480 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 177439004481 substrate binding site [polypeptide binding]; other site 177439004482 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 177439004483 Zn binding sites [ion binding]; other site 177439004484 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 177439004485 dimer interface [polypeptide binding]; other site 177439004486 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 177439004487 trimer interface [polypeptide binding]; other site 177439004488 dimer interface [polypeptide binding]; other site 177439004489 putative active site [active] 177439004490 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 177439004491 Type I GTP cyclohydrolase folE2; Region: GCHY-1; pfam02649 177439004492 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 177439004493 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 177439004494 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177439004495 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 177439004496 dimer interface [polypeptide binding]; other site 177439004497 phosphorylation site [posttranslational modification] 177439004498 Response regulator receiver domain; Region: Response_reg; pfam00072 177439004499 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 177439004500 active site 177439004501 phosphorylation site [posttranslational modification] 177439004502 intermolecular recognition site; other site 177439004503 dimerization interface [polypeptide binding]; other site 177439004504 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 177439004505 dimer interface [polypeptide binding]; other site 177439004506 phosphorylation site [posttranslational modification] 177439004507 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 177439004508 ATP binding site [chemical binding]; other site 177439004509 Mg2+ binding site [ion binding]; other site 177439004510 G-X-G motif; other site 177439004511 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 177439004512 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 177439004513 transmembrane helices; other site 177439004514 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 177439004515 active site 177439004516 phosphorylation site [posttranslational modification] 177439004517 intermolecular recognition site; other site 177439004518 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 177439004519 Response regulator receiver domain; Region: Response_reg; pfam00072 177439004520 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 177439004521 active site 177439004522 phosphorylation site [posttranslational modification] 177439004523 intermolecular recognition site; other site 177439004524 dimerization interface [polypeptide binding]; other site 177439004525 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 177439004526 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 177439004527 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177439004528 Coenzyme A binding pocket [chemical binding]; other site 177439004529 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 177439004530 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 177439004531 MarR family; Region: MarR; pfam01047 177439004532 MarR family; Region: MarR_2; cl17246 177439004533 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 177439004534 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 177439004535 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 177439004536 putative substrate translocation pore; other site 177439004537 Transcriptional regulators [Transcription]; Region: GntR; COG1802 177439004538 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177439004539 DNA-binding site [nucleotide binding]; DNA binding site 177439004540 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 177439004541 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 177439004542 homotrimer interaction site [polypeptide binding]; other site 177439004543 putative active site [active] 177439004544 D-cysteine desulfhydrase; Validated; Region: PRK03910 177439004545 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 177439004546 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177439004547 catalytic residue [active] 177439004548 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 177439004549 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 177439004550 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 177439004551 homotrimer interaction site [polypeptide binding]; other site 177439004552 putative active site [active] 177439004553 D-cysteine desulfhydrase; Validated; Region: PRK03910 177439004554 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 177439004555 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177439004556 catalytic residue [active] 177439004557 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177439004558 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 177439004559 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 177439004560 DctM-like transporters; Region: DctM; pfam06808 177439004561 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 177439004562 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177439004563 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177439004564 active site 177439004565 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 177439004566 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 177439004567 active site 177439004568 catalytic site [active] 177439004569 substrate binding site [chemical binding]; other site 177439004570 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 177439004571 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 177439004572 substrate binding pocket [chemical binding]; other site 177439004573 membrane-bound complex binding site; other site 177439004574 hinge residues; other site 177439004575 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 177439004576 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 177439004577 putative active site [active] 177439004578 heme pocket [chemical binding]; other site 177439004579 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 177439004580 putative active site [active] 177439004581 heme pocket [chemical binding]; other site 177439004582 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177439004583 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 177439004584 dimer interface [polypeptide binding]; other site 177439004585 phosphorylation site [posttranslational modification] 177439004586 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 177439004587 ATP binding site [chemical binding]; other site 177439004588 Mg2+ binding site [ion binding]; other site 177439004589 G-X-G motif; other site 177439004590 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177439004591 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 177439004592 active site 177439004593 phosphorylation site [posttranslational modification] 177439004594 intermolecular recognition site; other site 177439004595 dimerization interface [polypeptide binding]; other site 177439004596 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 177439004597 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 177439004598 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 177439004599 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177439004600 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 177439004601 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 177439004602 dimerization interface [polypeptide binding]; other site 177439004603 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439004604 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439004605 dimer interface [polypeptide binding]; other site 177439004606 putative CheW interface [polypeptide binding]; other site 177439004607 EVE domain; Region: EVE; cl00728 177439004608 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 177439004609 binding surface 177439004610 TPR motif; other site 177439004611 TPR repeat; Region: TPR_11; pfam13414 177439004612 TPR repeat; Region: TPR_11; pfam13414 177439004613 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 177439004614 binding surface 177439004615 TPR motif; other site 177439004616 TPR repeat; Region: TPR_11; pfam13414 177439004617 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 177439004618 binding surface 177439004619 TPR motif; other site 177439004620 TPR repeat; Region: TPR_11; pfam13414 177439004621 TPR repeat; Region: TPR_11; pfam13414 177439004622 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 177439004623 binding surface 177439004624 TPR motif; other site 177439004625 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 177439004626 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 177439004627 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 177439004628 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 177439004629 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 177439004630 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 177439004631 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 177439004632 ATP binding site [chemical binding]; other site 177439004633 Walker A motif; other site 177439004634 hexamer interface [polypeptide binding]; other site 177439004635 Walker B motif; other site 177439004636 AAA domain; Region: AAA_31; pfam13614 177439004637 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 177439004638 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 177439004639 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 177439004640 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 177439004641 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 177439004642 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 177439004643 TadE-like protein; Region: TadE; pfam07811 177439004644 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 177439004645 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 177439004646 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 177439004647 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 177439004648 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 177439004649 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 177439004650 Flp/Fap pilin component; Region: Flp_Fap; cl01585 177439004651 Flp/Fap pilin component; Region: Flp_Fap; cl01585 177439004652 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 177439004653 Walker A motif; other site 177439004654 ATP binding site [chemical binding]; other site 177439004655 Walker B motif; other site 177439004656 arginine finger; other site 177439004657 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 177439004658 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 177439004659 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 177439004660 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 177439004661 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 177439004662 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 177439004663 Walker A/P-loop; other site 177439004664 ATP binding site [chemical binding]; other site 177439004665 Q-loop/lid; other site 177439004666 ABC transporter signature motif; other site 177439004667 Walker B; other site 177439004668 D-loop; other site 177439004669 H-loop/switch region; other site 177439004670 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 177439004671 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439004672 Walker A/P-loop; other site 177439004673 ATP binding site [chemical binding]; other site 177439004674 Q-loop/lid; other site 177439004675 ABC transporter signature motif; other site 177439004676 Walker B; other site 177439004677 D-loop; other site 177439004678 H-loop/switch region; other site 177439004679 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 177439004680 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177439004681 HlyD family secretion protein; Region: HlyD_3; pfam13437 177439004682 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 177439004683 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 177439004684 active site 177439004685 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177439004686 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177439004687 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 177439004688 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177439004689 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 177439004690 Predicted amidohydrolase [General function prediction only]; Region: COG0388 177439004691 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 177439004692 putative active site [active] 177439004693 catalytic triad [active] 177439004694 putative dimer interface [polypeptide binding]; other site 177439004695 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 177439004696 putative active site [active] 177439004697 heme pocket [chemical binding]; other site 177439004698 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439004699 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439004700 metal binding site [ion binding]; metal-binding site 177439004701 active site 177439004702 I-site; other site 177439004703 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 177439004704 Response regulator receiver domain; Region: Response_reg; pfam00072 177439004705 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 177439004706 active site 177439004707 phosphorylation site [posttranslational modification] 177439004708 intermolecular recognition site; other site 177439004709 dimerization interface [polypeptide binding]; other site 177439004710 Protein of unknown function (DUF523); Region: DUF523; pfam04463 177439004711 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 177439004712 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177439004713 substrate binding pocket [chemical binding]; other site 177439004714 membrane-bound complex binding site; other site 177439004715 hinge residues; other site 177439004716 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177439004717 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 177439004718 dimer interface [polypeptide binding]; other site 177439004719 conserved gate region; other site 177439004720 putative PBP binding loops; other site 177439004721 ABC-ATPase subunit interface; other site 177439004722 Predicted GTPase [General function prediction only]; Region: COG2403 177439004723 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 177439004724 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 177439004725 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 177439004726 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 177439004727 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 177439004728 inner capsid protein lambda-1 or VP3; Region: lambda-1; cd11674 177439004729 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 177439004730 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 177439004731 non-specific DNA binding site [nucleotide binding]; other site 177439004732 salt bridge; other site 177439004733 sequence-specific DNA binding site [nucleotide binding]; other site 177439004734 D5 N terminal like; Region: D5_N; smart00885 177439004735 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 177439004736 DNA primase, catalytic core; Region: dnaG; TIGR01391 177439004737 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; cl17533 177439004738 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 177439004739 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 177439004740 active site 177439004741 metal binding site [ion binding]; metal-binding site 177439004742 interdomain interaction site; other site 177439004743 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 177439004744 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 177439004745 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 177439004746 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 177439004747 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 177439004748 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 177439004749 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 177439004750 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 177439004751 tandem repeat interface [polypeptide binding]; other site 177439004752 oligomer interface [polypeptide binding]; other site 177439004753 active site residues [active] 177439004754 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 177439004755 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 177439004756 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 177439004757 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 177439004758 N-acetyl-D-glucosamine binding site [chemical binding]; other site 177439004759 catalytic residue [active] 177439004760 Domain of unknown function (DUF955); Region: DUF955; pfam06114 177439004761 integrase; Provisional; Region: int; PHA02601 177439004762 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 177439004763 active site 177439004764 catalytic residues [active] 177439004765 DNA binding site [nucleotide binding] 177439004766 Int/Topo IB signature motif; other site 177439004767 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 177439004768 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 177439004769 active site 177439004770 hydrophilic channel; other site 177439004771 dimerization interface [polypeptide binding]; other site 177439004772 catalytic residues [active] 177439004773 active site lid [active] 177439004774 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 177439004775 PhoH-like protein; Region: PhoH; pfam02562 177439004776 Thioredoxin; Region: Thioredoxin_4; pfam13462 177439004777 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 177439004778 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 177439004779 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 177439004780 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439004781 homodimer interface [polypeptide binding]; other site 177439004782 catalytic residue [active] 177439004783 Type I GTP cyclohydrolase folE2; Region: GCHY-1; pfam02649 177439004784 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 177439004785 FAD binding site [chemical binding]; other site 177439004786 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 177439004787 RNA binding surface [nucleotide binding]; other site 177439004788 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 177439004789 purine monophosphate binding site [chemical binding]; other site 177439004790 dimer interface [polypeptide binding]; other site 177439004791 putative catalytic residues [active] 177439004792 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 177439004793 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 177439004794 active site 177439004795 substrate binding site [chemical binding]; other site 177439004796 cosubstrate binding site; other site 177439004797 catalytic site [active] 177439004798 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 177439004799 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177439004800 active site 177439004801 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 177439004802 Peptidase family U32; Region: Peptidase_U32; pfam01136 177439004803 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 177439004804 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 177439004805 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 177439004806 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 177439004807 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 177439004808 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 177439004809 glutamine binding [chemical binding]; other site 177439004810 catalytic triad [active] 177439004811 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 177439004812 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 177439004813 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 177439004814 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 177439004815 active site 177439004816 ribulose/triose binding site [chemical binding]; other site 177439004817 phosphate binding site [ion binding]; other site 177439004818 substrate (anthranilate) binding pocket [chemical binding]; other site 177439004819 product (indole) binding pocket [chemical binding]; other site 177439004820 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 177439004821 active site 177439004822 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177439004823 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 177439004824 Walker A/P-loop; other site 177439004825 ATP binding site [chemical binding]; other site 177439004826 Q-loop/lid; other site 177439004827 ABC transporter signature motif; other site 177439004828 Walker B; other site 177439004829 D-loop; other site 177439004830 H-loop/switch region; other site 177439004831 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 177439004832 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 177439004833 FtsX-like permease family; Region: FtsX; pfam02687 177439004834 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 177439004835 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 177439004836 dimer interface [polypeptide binding]; other site 177439004837 putative anticodon binding site; other site 177439004838 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 177439004839 motif 1; other site 177439004840 active site 177439004841 motif 2; other site 177439004842 motif 3; other site 177439004843 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 177439004844 substrate binding site [chemical binding]; other site 177439004845 active site 177439004846 catalytic residues [active] 177439004847 heterodimer interface [polypeptide binding]; other site 177439004848 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 177439004849 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 177439004850 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439004851 catalytic residue [active] 177439004852 FliW protein; Region: FliW; pfam02623 177439004853 Predicted methyltransferases [General function prediction only]; Region: COG0313 177439004854 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 177439004855 putative SAM binding site [chemical binding]; other site 177439004856 putative homodimer interface [polypeptide binding]; other site 177439004857 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 177439004858 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 177439004859 putative active site [active] 177439004860 putative metal binding site [ion binding]; other site 177439004861 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 177439004862 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 177439004863 binding surface 177439004864 TPR motif; other site 177439004865 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 177439004866 TPR motif; other site 177439004867 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 177439004868 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 177439004869 DXD motif; other site 177439004870 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 177439004871 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 177439004872 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 177439004873 Uncharacterized conserved protein [Function unknown]; Region: COG1624 177439004874 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 177439004875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 177439004876 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 177439004877 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 177439004878 active site 177439004879 substrate binding site [chemical binding]; other site 177439004880 metal binding site [ion binding]; metal-binding site 177439004881 GrpE; Region: GrpE; pfam01025 177439004882 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 177439004883 dimer interface [polypeptide binding]; other site 177439004884 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 177439004885 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 177439004886 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 177439004887 nucleotide binding site [chemical binding]; other site 177439004888 NEF interaction site [polypeptide binding]; other site 177439004889 SBD interface [polypeptide binding]; other site 177439004890 Kinetochore protein CHL4 like; Region: CENP-N; pfam05238 177439004891 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 177439004892 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 177439004893 active site 177439004894 HIGH motif; other site 177439004895 dimer interface [polypeptide binding]; other site 177439004896 KMSKS motif; other site 177439004897 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 177439004898 active site 177439004899 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 177439004900 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 177439004901 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 177439004902 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 177439004903 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 177439004904 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 177439004905 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 177439004906 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 177439004907 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177439004908 Uncharacterized conserved protein [Function unknown]; Region: COG0398 177439004909 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 177439004910 Uncharacterized conserved protein [Function unknown]; Region: COG0398 177439004911 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 177439004912 Methyltransferase domain; Region: Methyltransf_31; pfam13847 177439004913 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 177439004914 S-adenosylmethionine binding site [chemical binding]; other site 177439004915 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 177439004916 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 177439004917 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 177439004918 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 177439004919 Methyltransferase domain; Region: Methyltransf_23; pfam13489 177439004920 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 177439004921 S-adenosylmethionine binding site [chemical binding]; other site 177439004922 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 177439004923 Rubredoxin; Region: Rubredoxin; pfam00301 177439004924 iron binding site [ion binding]; other site 177439004925 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 177439004926 Rubrerythrin [Energy production and conversion]; Region: COG1592 177439004927 diiron binding motif [ion binding]; other site 177439004928 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 177439004929 flagellar capping protein; Reviewed; Region: fliD; PRK08032 177439004930 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 177439004931 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 177439004932 FlaG protein; Region: FlaG; pfam03646 177439004933 flagellin; Reviewed; Region: PRK08869 177439004934 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 177439004935 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 177439004936 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 177439004937 putative active site [active] 177439004938 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 177439004939 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 177439004940 active site 177439004941 PHP Thumb interface [polypeptide binding]; other site 177439004942 metal binding site [ion binding]; metal-binding site 177439004943 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 177439004944 generic binding surface II; other site 177439004945 generic binding surface I; other site 177439004946 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 177439004947 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 177439004948 fructose 1,6-bisphosphatase II; Reviewed; Region: glpX; PRK09479 177439004949 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 177439004950 active site 177439004951 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 177439004952 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 177439004953 Uncharacterized conserved protein [Function unknown]; Region: COG2006 177439004954 4Fe-4S binding domain; Region: Fer4; pfam00037 177439004955 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 177439004956 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 177439004957 non-heme iron binding site [ion binding]; other site 177439004958 dimer interface [polypeptide binding]; other site 177439004959 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 177439004960 non-heme iron binding site [ion binding]; other site 177439004961 dimer interface [polypeptide binding]; other site 177439004962 DOMON domain; Region: DOMON; pfam03351 177439004963 DOMON-like domain of copper-dependent monooxygenases and related proteins; Region: DOMON_DOH; cd09631 177439004964 putative ligand binding site [chemical binding]; other site 177439004965 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 177439004966 Ferritin-like domain; Region: Ferritin; pfam00210 177439004967 ferroxidase diiron center [ion binding]; other site 177439004968 heat shock protein HtpX; Provisional; Region: PRK05457 177439004969 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 177439004970 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 177439004971 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 177439004972 Flavoprotein; Region: Flavoprotein; pfam02441 177439004973 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 177439004974 Transglycosylase; Region: Transgly; pfam00912 177439004975 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 177439004976 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 177439004977 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 177439004978 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 177439004979 N-acetyl-D-glucosamine binding site [chemical binding]; other site 177439004980 catalytic residue [active] 177439004981 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 177439004982 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 177439004983 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 177439004984 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 177439004985 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 177439004986 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 177439004987 Protein of unknown function (DUF615); Region: DUF615; pfam04751 177439004988 NlpC/P60 family; Region: NLPC_P60; pfam00877 177439004989 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 177439004990 ResB-like family; Region: ResB; pfam05140 177439004991 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 177439004992 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 177439004993 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 177439004994 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 177439004995 ATP binding site [chemical binding]; other site 177439004996 substrate interface [chemical binding]; other site 177439004997 Lysine efflux permease [General function prediction only]; Region: COG1279 177439004998 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 177439004999 RNB domain; Region: RNB; pfam00773 177439005000 GTPase Era; Reviewed; Region: era; PRK00089 177439005001 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 177439005002 G1 box; other site 177439005003 GTP/Mg2+ binding site [chemical binding]; other site 177439005004 Switch I region; other site 177439005005 G2 box; other site 177439005006 Switch II region; other site 177439005007 G3 box; other site 177439005008 G4 box; other site 177439005009 G5 box; other site 177439005010 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 177439005011 DEAD-like helicases superfamily; Region: DEXDc; smart00487 177439005012 ATP binding site [chemical binding]; other site 177439005013 Mg++ binding site [ion binding]; other site 177439005014 motif III; other site 177439005015 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 177439005016 nucleotide binding region [chemical binding]; other site 177439005017 ATP-binding site [chemical binding]; other site 177439005018 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 177439005019 RNA binding site [nucleotide binding]; other site 177439005020 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 177439005021 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 177439005022 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177439005023 catalytic residue [active] 177439005024 TPR repeat; Region: TPR_11; pfam13414 177439005025 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 177439005026 TPR motif; other site 177439005027 binding surface 177439005028 TPR repeat; Region: TPR_11; pfam13414 177439005029 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 177439005030 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 177439005031 binding surface 177439005032 TPR motif; other site 177439005033 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 177439005034 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 177439005035 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 177439005036 Walker A motif; other site 177439005037 ATP binding site [chemical binding]; other site 177439005038 Walker B motif; other site 177439005039 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 177439005040 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 177439005041 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 177439005042 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177439005043 HlyD family secretion protein; Region: HlyD_3; pfam13437 177439005044 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177439005045 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177439005046 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 177439005047 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 177439005048 homodimer interface [polypeptide binding]; other site 177439005049 substrate-cofactor binding pocket; other site 177439005050 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439005051 catalytic residue [active] 177439005052 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177439005053 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 177439005054 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 177439005055 HSP70 interaction site [polypeptide binding]; other site 177439005056 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 177439005057 substrate binding site [polypeptide binding]; other site 177439005058 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 177439005059 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 177439005060 Competence protein; Region: Competence; pfam03772 177439005061 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 177439005062 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 177439005063 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 177439005064 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 177439005065 RNA methyltransferase, RsmE family; Region: TIGR00046 177439005066 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 177439005067 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 177439005068 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 177439005069 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 177439005070 putative ligand binding site [chemical binding]; other site 177439005071 putative NAD binding site [chemical binding]; other site 177439005072 putative catalytic site [active] 177439005073 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 177439005074 L-serine binding site [chemical binding]; other site 177439005075 ACT domain interface; other site 177439005076 Uncharacterized conserved protein [Function unknown]; Region: COG2006 177439005077 Domain of unknown function (DUF362); Region: DUF362; pfam04015 177439005078 Maf-like protein; Region: Maf; pfam02545 177439005079 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 177439005080 active site 177439005081 dimer interface [polypeptide binding]; other site 177439005082 HEAT repeats; Region: HEAT_2; pfam13646 177439005083 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 177439005084 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177439005085 ligand binding site [chemical binding]; other site 177439005086 flexible hinge region; other site 177439005087 PilZ domain; Region: PilZ; pfam07238 177439005088 Transposase; Region: HTH_Tnp_1; pfam01527 177439005089 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 177439005090 putative transposase OrfB; Reviewed; Region: PHA02517 177439005091 HTH-like domain; Region: HTH_21; pfam13276 177439005092 Integrase core domain; Region: rve; pfam00665 177439005093 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 177439005094 Isochorismatase family; Region: Isochorismatase; pfam00857 177439005095 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 177439005096 catalytic triad [active] 177439005097 dimer interface [polypeptide binding]; other site 177439005098 conserved cis-peptide bond; other site 177439005099 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 177439005100 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 177439005101 trimer interface [polypeptide binding]; other site 177439005102 active site 177439005103 substrate binding site [chemical binding]; other site 177439005104 CoA binding site [chemical binding]; other site 177439005105 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 177439005106 putative MPT binding site; other site 177439005107 BCCT family transporter; Region: BCCT; pfam02028 177439005108 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 177439005109 Ligand binding site; other site 177439005110 metal-binding site 177439005111 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 177439005112 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 177439005113 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 177439005114 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 177439005115 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 177439005116 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 177439005117 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 177439005118 catalytic loop [active] 177439005119 iron binding site [ion binding]; other site 177439005120 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 177439005121 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177439005122 EamA-like transporter family; Region: EamA; cl17759 177439005123 EamA-like transporter family; Region: EamA; pfam00892 177439005124 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177439005125 EamA-like transporter family; Region: EamA; pfam00892 177439005126 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 177439005127 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 177439005128 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 177439005129 active site 177439005130 proposed homoserine kinase; Region: hyp_Hser_kinase; TIGR02535 177439005131 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 177439005132 homoserine dehydrogenase; Provisional; Region: PRK06349 177439005133 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 177439005134 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 177439005135 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 177439005136 adenylate kinase; Provisional; Region: PRK14529 177439005137 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 177439005138 AMP-binding site [chemical binding]; other site 177439005139 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 177439005140 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 177439005141 diphthine synthase; Region: dph5; TIGR00522 177439005142 active site 177439005143 SAM binding site [chemical binding]; other site 177439005144 homodimer interface [polypeptide binding]; other site 177439005145 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 177439005146 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 177439005147 active site 177439005148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 177439005149 CreA protein; Region: CreA; pfam05981 177439005150 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 177439005151 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 177439005152 Substrate binding site; other site 177439005153 Mg++ binding site; other site 177439005154 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 177439005155 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 177439005156 thiS-thiF/thiG interaction site; other site 177439005157 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 177439005158 ThiS interaction site; other site 177439005159 putative active site [active] 177439005160 tetramer interface [polypeptide binding]; other site 177439005161 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 177439005162 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 177439005163 FeS/SAM binding site; other site 177439005164 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 177439005165 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 177439005166 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 177439005167 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 177439005168 substrate binding pocket [chemical binding]; other site 177439005169 chain length determination region; other site 177439005170 substrate-Mg2+ binding site; other site 177439005171 catalytic residues [active] 177439005172 aspartate-rich region 1; other site 177439005173 active site lid residues [active] 177439005174 aspartate-rich region 2; other site 177439005175 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 177439005176 DEAD/DEAH box helicase; Region: DEAD; pfam00270 177439005177 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 177439005178 Family description; Region: VCBS; pfam13517 177439005179 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 177439005180 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 177439005181 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 177439005182 putative ADP-binding pocket [chemical binding]; other site 177439005183 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177439005184 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 177439005185 catalytic core [active] 177439005186 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 177439005187 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 177439005188 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 177439005189 NodB motif; other site 177439005190 putative active site [active] 177439005191 putative catalytic site [active] 177439005192 putative Zn binding site [ion binding]; other site 177439005193 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 177439005194 FtsX-like permease family; Region: FtsX; pfam02687 177439005195 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177439005196 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 177439005197 Walker A/P-loop; other site 177439005198 ATP binding site [chemical binding]; other site 177439005199 Q-loop/lid; other site 177439005200 ABC transporter signature motif; other site 177439005201 Walker B; other site 177439005202 D-loop; other site 177439005203 H-loop/switch region; other site 177439005204 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 177439005205 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 177439005206 FtsX-like permease family; Region: FtsX; pfam02687 177439005207 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 177439005208 Fe-S cluster binding site [ion binding]; other site 177439005209 active site 177439005210 Uncharacterized conserved protein [Function unknown]; Region: COG1683 177439005211 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 177439005212 seryl-tRNA synthetase; Provisional; Region: PRK05431 177439005213 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 177439005214 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 177439005215 dimer interface [polypeptide binding]; other site 177439005216 active site 177439005217 motif 1; other site 177439005218 motif 2; other site 177439005219 motif 3; other site 177439005220 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 177439005221 Mechanosensitive ion channel; Region: MS_channel; pfam00924 177439005222 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 177439005223 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 177439005224 Walker A motif; other site 177439005225 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 177439005226 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 177439005227 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177439005228 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 177439005229 [4Fe-4S] binding site [ion binding]; other site 177439005230 molybdopterin cofactor binding site; other site 177439005231 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 177439005232 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 177439005233 molybdopterin cofactor binding site; other site 177439005234 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 177439005235 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 177439005236 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 177439005237 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177439005238 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177439005239 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 177439005240 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 177439005241 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 177439005242 active site 177439005243 phosphorylation site [posttranslational modification] 177439005244 intermolecular recognition site; other site 177439005245 dimerization interface [polypeptide binding]; other site 177439005246 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 177439005247 DNA binding residues [nucleotide binding] 177439005248 dimerization interface [polypeptide binding]; other site 177439005249 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 177439005250 Cache domain; Region: Cache_2; cl07034 177439005251 GAF domain; Region: GAF_2; pfam13185 177439005252 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 177439005253 Histidine kinase; Region: HisKA_3; pfam07730 177439005254 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 177439005255 ATP binding site [chemical binding]; other site 177439005256 Mg2+ binding site [ion binding]; other site 177439005257 G-X-G motif; other site 177439005258 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 177439005259 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 177439005260 putative ligand binding site [chemical binding]; other site 177439005261 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 177439005262 putative cation:proton antiport protein; Provisional; Region: PRK10669 177439005263 TrkA-N domain; Region: TrkA_N; pfam02254 177439005264 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 177439005265 TrkA-C domain; Region: TrkA_C; pfam02080 177439005266 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 177439005267 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 177439005268 arsenical-resistance protein; Region: acr3; TIGR00832 177439005269 MucB/RseB family; Region: MucB_RseB; pfam03888 177439005270 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 177439005271 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 177439005272 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 177439005273 FtsX-like permease family; Region: FtsX; pfam02687 177439005274 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177439005275 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 177439005276 Walker A/P-loop; other site 177439005277 ATP binding site [chemical binding]; other site 177439005278 Q-loop/lid; other site 177439005279 ABC transporter signature motif; other site 177439005280 Walker B; other site 177439005281 D-loop; other site 177439005282 H-loop/switch region; other site 177439005283 Hemerythrin; Region: Hemerythrin; cd12107 177439005284 Fe binding site [ion binding]; other site 177439005285 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 177439005286 Ca2+ binding site [ion binding]; other site 177439005287 Response regulator receiver domain; Region: Response_reg; pfam00072 177439005288 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 177439005289 active site 177439005290 phosphorylation site [posttranslational modification] 177439005291 intermolecular recognition site; other site 177439005292 dimerization interface [polypeptide binding]; other site 177439005293 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439005294 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439005295 metal binding site [ion binding]; metal-binding site 177439005296 active site 177439005297 I-site; other site 177439005298 CheB methylesterase; Region: CheB_methylest; pfam01339 177439005299 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 177439005300 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 177439005301 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 177439005302 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 177439005303 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 177439005304 dimerization interface [polypeptide binding]; other site 177439005305 GAF domain; Region: GAF; pfam01590 177439005306 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 177439005307 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 177439005308 ATP binding site [chemical binding]; other site 177439005309 Mg2+ binding site [ion binding]; other site 177439005310 G-X-G motif; other site 177439005311 Response regulator receiver domain; Region: Response_reg; pfam00072 177439005312 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 177439005313 active site 177439005314 phosphorylation site [posttranslational modification] 177439005315 intermolecular recognition site; other site 177439005316 dimerization interface [polypeptide binding]; other site 177439005317 Response regulator receiver domain; Region: Response_reg; pfam00072 177439005318 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 177439005319 active site 177439005320 phosphorylation site [posttranslational modification] 177439005321 intermolecular recognition site; other site 177439005322 dimerization interface [polypeptide binding]; other site 177439005323 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177439005324 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 177439005325 active site 177439005326 phosphorylation site [posttranslational modification] 177439005327 intermolecular recognition site; other site 177439005328 dimerization interface [polypeptide binding]; other site 177439005329 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 177439005330 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 177439005331 dimerization interface [polypeptide binding]; other site 177439005332 active site 177439005333 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 177439005334 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 177439005335 HIGH motif; other site 177439005336 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 177439005337 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 177439005338 active site 177439005339 KMSKS motif; other site 177439005340 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 177439005341 tRNA binding surface [nucleotide binding]; other site 177439005342 anticodon binding site; other site 177439005343 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 177439005344 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 177439005345 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439005346 Zn2+ binding site [ion binding]; other site 177439005347 Mg2+ binding site [ion binding]; other site 177439005348 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 177439005349 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 177439005350 dimer interface [polypeptide binding]; other site 177439005351 catalytic triad [active] 177439005352 peroxidatic and resolving cysteines [active] 177439005353 enolase; Provisional; Region: eno; PRK00077 177439005354 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 177439005355 dimer interface [polypeptide binding]; other site 177439005356 metal binding site [ion binding]; metal-binding site 177439005357 substrate binding pocket [chemical binding]; other site 177439005358 hypothetical protein; Provisional; Region: PRK10621 177439005359 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177439005360 Response regulator receiver domain; Region: Response_reg; pfam00072 177439005361 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 177439005362 active site 177439005363 phosphorylation site [posttranslational modification] 177439005364 intermolecular recognition site; other site 177439005365 dimerization interface [polypeptide binding]; other site 177439005366 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 177439005367 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 177439005368 E3 interaction surface; other site 177439005369 lipoyl attachment site [posttranslational modification]; other site 177439005370 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 177439005371 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 177439005372 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 177439005373 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 177439005374 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 177439005375 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 177439005376 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 177439005377 catalytic loop [active] 177439005378 iron binding site [ion binding]; other site 177439005379 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 177439005380 FAD binding pocket [chemical binding]; other site 177439005381 FAD binding motif [chemical binding]; other site 177439005382 phosphate binding motif [ion binding]; other site 177439005383 beta-alpha-beta structure motif; other site 177439005384 NAD binding pocket [chemical binding]; other site 177439005385 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 177439005386 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177439005387 Cysteine-rich domain; Region: CCG; pfam02754 177439005388 Cysteine-rich domain; Region: CCG; pfam02754 177439005389 PCRF domain; Region: PCRF; pfam03462 177439005390 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 177439005391 RF-1 domain; Region: RF-1; pfam00472 177439005392 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 177439005393 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 177439005394 putative active site [active] 177439005395 catalytic triad [active] 177439005396 putative dimer interface [polypeptide binding]; other site 177439005397 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 177439005398 Transporter associated domain; Region: CorC_HlyC; smart01091 177439005399 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 177439005400 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 177439005401 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177439005402 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 177439005403 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; pfam03255 177439005404 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 177439005405 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 177439005406 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 177439005407 Uncharacterized conserved protein [Function unknown]; Region: COG2968 177439005408 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 177439005409 Transglycosylase SLT domain; Region: SLT_2; pfam13406 177439005410 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 177439005411 N-acetyl-D-glucosamine binding site [chemical binding]; other site 177439005412 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 177439005413 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 177439005414 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 177439005415 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; cl15377 177439005416 FeS/SAM binding site; other site 177439005417 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 177439005418 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 177439005419 dimer interface [polypeptide binding]; other site 177439005420 active site 177439005421 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 177439005422 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 177439005423 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 177439005424 DNA binding residues [nucleotide binding] 177439005425 drug binding residues [chemical binding]; other site 177439005426 dimer interface [polypeptide binding]; other site 177439005427 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 177439005428 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 177439005429 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 177439005430 Hexamer interface [polypeptide binding]; other site 177439005431 Hexagonal pore residue; other site 177439005432 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 177439005433 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 177439005434 Hexamer interface [polypeptide binding]; other site 177439005435 Hexagonal pore residue; other site 177439005436 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 177439005437 putative catalytic cysteine [active] 177439005438 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 177439005439 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 177439005440 dimer interface [polypeptide binding]; other site 177439005441 active site 177439005442 glycine loop; other site 177439005443 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 177439005444 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 177439005445 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 177439005446 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 177439005447 putative hexamer interface [polypeptide binding]; other site 177439005448 putative hexagonal pore; other site 177439005449 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 177439005450 putative hexamer interface [polypeptide binding]; other site 177439005451 putative hexagonal pore; other site 177439005452 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 177439005453 putative hexamer interface [polypeptide binding]; other site 177439005454 putative hexagonal pore; other site 177439005455 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 177439005456 G1 box; other site 177439005457 GTP/Mg2+ binding site [chemical binding]; other site 177439005458 Fic family protein [Function unknown]; Region: COG3177 177439005459 Fic/DOC family; Region: Fic; pfam02661 177439005460 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 177439005461 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 177439005462 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439005463 Walker A/P-loop; other site 177439005464 ATP binding site [chemical binding]; other site 177439005465 Q-loop/lid; other site 177439005466 ABC transporter signature motif; other site 177439005467 Walker B; other site 177439005468 D-loop; other site 177439005469 H-loop/switch region; other site 177439005470 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 177439005471 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 177439005472 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 177439005473 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 177439005474 dimer interface [polypeptide binding]; other site 177439005475 active site 177439005476 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 177439005477 active site 177439005478 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 177439005479 active site 2 [active] 177439005480 active site 1 [active] 177439005481 Predicted exporter [General function prediction only]; Region: COG4258 177439005482 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 177439005483 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 177439005484 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 177439005485 active site 2 [active] 177439005486 active site 1 [active] 177439005487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177439005488 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 177439005489 NAD(P) binding site [chemical binding]; other site 177439005490 active site 177439005491 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 177439005492 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 177439005493 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 177439005494 dimer interface [polypeptide binding]; other site 177439005495 active site 177439005496 Phosphopantetheine attachment site; Region: PP-binding; cl09936 177439005497 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 177439005498 putative acyl-acceptor binding pocket; other site 177439005499 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 177439005500 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 177439005501 Ligand binding site; other site 177439005502 Putative Catalytic site; other site 177439005503 DXD motif; other site 177439005504 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 177439005505 lipid biosynthesis B12-binding/radical SAM protein; Region: rSAM_ladder_B12; TIGR04072 177439005506 B12 binding site [chemical binding]; other site 177439005507 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 177439005508 Radical SAM superfamily; Region: Radical_SAM; pfam04055 177439005509 FeS/SAM binding site; other site 177439005510 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 177439005511 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 177439005512 FeS/SAM binding site; other site 177439005513 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 177439005514 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177439005515 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 177439005516 acyl-activating enzyme (AAE) consensus motif; other site 177439005517 AMP binding site [chemical binding]; other site 177439005518 active site 177439005519 CoA binding site [chemical binding]; other site 177439005520 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 177439005521 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 177439005522 putative acyl-acceptor binding pocket; other site 177439005523 Phosphopantetheine attachment site; Region: PP-binding; cl09936 177439005524 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 177439005525 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 177439005526 dimer interface [polypeptide binding]; other site 177439005527 active site 177439005528 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 177439005529 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177439005530 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 177439005531 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 177439005532 putative substrate translocation pore; other site 177439005533 Transcriptional regulators [Transcription]; Region: MarR; COG1846 177439005534 MarR family; Region: MarR_2; pfam12802 177439005535 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 177439005536 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177439005537 putative substrate translocation pore; other site 177439005538 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 177439005539 Uncharacterized conserved protein [Function unknown]; Region: COG1633 177439005540 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 177439005541 diiron binding motif [ion binding]; other site 177439005542 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 177439005543 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 177439005544 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 177439005545 putative dimer interface [polypeptide binding]; other site 177439005546 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 177439005547 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 177439005548 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 177439005549 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 177439005550 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 177439005551 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 177439005552 dimer interface [polypeptide binding]; other site 177439005553 active site 177439005554 metal binding site [ion binding]; metal-binding site 177439005555 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 177439005556 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 177439005557 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 177439005558 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 177439005559 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 177439005560 DNA-binding site [nucleotide binding]; DNA binding site 177439005561 RNA-binding motif; other site 177439005562 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 177439005563 active site residue [active] 177439005564 Haemolysin-III related; Region: HlyIII; cl03831 177439005565 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 177439005566 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 177439005567 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 177439005568 dimer interface [polypeptide binding]; other site 177439005569 active site 177439005570 glycine-pyridoxal phosphate binding site [chemical binding]; other site 177439005571 folate binding site [chemical binding]; other site 177439005572 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 177439005573 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 177439005574 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 177439005575 homotrimer interaction site [polypeptide binding]; other site 177439005576 putative active site [active] 177439005577 Low molecular weight phosphatase family; Region: LMWPc; cd00115 177439005578 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 177439005579 active site 177439005580 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 177439005581 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 177439005582 Walker A/P-loop; other site 177439005583 ATP binding site [chemical binding]; other site 177439005584 Q-loop/lid; other site 177439005585 ABC transporter signature motif; other site 177439005586 Walker B; other site 177439005587 D-loop; other site 177439005588 H-loop/switch region; other site 177439005589 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 177439005590 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 177439005591 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 177439005592 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 177439005593 dimer interface [polypeptide binding]; other site 177439005594 conserved gate region; other site 177439005595 putative PBP binding loops; other site 177439005596 ABC-ATPase subunit interface; other site 177439005597 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 177439005598 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 177439005599 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 177439005600 dimer interface [polypeptide binding]; other site 177439005601 conserved gate region; other site 177439005602 putative PBP binding loops; other site 177439005603 ABC-ATPase subunit interface; other site 177439005604 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 177439005605 PhoU domain; Region: PhoU; pfam01895 177439005606 PhoU domain; Region: PhoU; pfam01895 177439005607 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 177439005608 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 177439005609 active site 177439005610 phosphorylation site [posttranslational modification] 177439005611 intermolecular recognition site; other site 177439005612 dimerization interface [polypeptide binding]; other site 177439005613 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 177439005614 DNA binding site [nucleotide binding] 177439005615 HAMP domain; Region: HAMP; pfam00672 177439005616 dimerization interface [polypeptide binding]; other site 177439005617 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 177439005618 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 177439005619 putative active site [active] 177439005620 heme pocket [chemical binding]; other site 177439005621 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 177439005622 dimer interface [polypeptide binding]; other site 177439005623 phosphorylation site [posttranslational modification] 177439005624 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 177439005625 ATP binding site [chemical binding]; other site 177439005626 Mg2+ binding site [ion binding]; other site 177439005627 G-X-G motif; other site 177439005628 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 177439005629 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 177439005630 PhnA protein; Region: PhnA; pfam03831 177439005631 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 177439005632 ParB-like nuclease domain; Region: ParB; smart00470 177439005633 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 177439005634 dimerization interface [polypeptide binding]; other site 177439005635 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 177439005636 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 177439005637 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 177439005638 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 177439005639 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 177439005640 Walker A/P-loop; other site 177439005641 ATP binding site [chemical binding]; other site 177439005642 Q-loop/lid; other site 177439005643 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439005644 ABC transporter signature motif; other site 177439005645 Walker B; other site 177439005646 D-loop; other site 177439005647 H-loop/switch region; other site 177439005648 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177439005649 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 177439005650 ligand binding site [chemical binding]; other site 177439005651 flexible hinge region; other site 177439005652 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 177439005653 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 177439005654 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 177439005655 anti sigma factor interaction site; other site 177439005656 regulatory phosphorylation site [posttranslational modification]; other site 177439005657 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 177439005658 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 177439005659 dimerization interface [polypeptide binding]; other site 177439005660 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439005661 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439005662 dimer interface [polypeptide binding]; other site 177439005663 putative CheW interface [polypeptide binding]; other site 177439005664 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 177439005665 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 177439005666 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 177439005667 dimerization interface [polypeptide binding]; other site 177439005668 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439005669 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439005670 dimer interface [polypeptide binding]; other site 177439005671 putative CheW interface [polypeptide binding]; other site 177439005672 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 177439005673 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 177439005674 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 177439005675 dimerization interface [polypeptide binding]; other site 177439005676 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439005677 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439005678 dimer interface [polypeptide binding]; other site 177439005679 putative CheW interface [polypeptide binding]; other site 177439005680 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 177439005681 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 177439005682 dimerization interface [polypeptide binding]; other site 177439005683 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439005684 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439005685 dimer interface [polypeptide binding]; other site 177439005686 putative CheW interface [polypeptide binding]; other site 177439005687 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 177439005688 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14168 177439005689 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 177439005690 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 177439005691 homodimer interface [polypeptide binding]; other site 177439005692 NADP binding site [chemical binding]; other site 177439005693 substrate binding site [chemical binding]; other site 177439005694 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 177439005695 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 177439005696 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439005697 Zn2+ binding site [ion binding]; other site 177439005698 Mg2+ binding site [ion binding]; other site 177439005699 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 177439005700 synthetase active site [active] 177439005701 NTP binding site [chemical binding]; other site 177439005702 metal binding site [ion binding]; metal-binding site 177439005703 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 177439005704 ribonuclease R; Region: RNase_R; TIGR02063 177439005705 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 177439005706 RNB domain; Region: RNB; pfam00773 177439005707 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 177439005708 RNA binding site [nucleotide binding]; other site 177439005709 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 177439005710 endonuclease III; Region: ENDO3c; smart00478 177439005711 minor groove reading motif; other site 177439005712 helix-hairpin-helix signature motif; other site 177439005713 substrate binding pocket [chemical binding]; other site 177439005714 active site 177439005715 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 177439005716 phosphofructokinase; Region: PFK_mixed; TIGR02483 177439005717 active site 177439005718 ADP/pyrophosphate binding site [chemical binding]; other site 177439005719 dimerization interface [polypeptide binding]; other site 177439005720 allosteric effector site; other site 177439005721 fructose-1,6-bisphosphate binding site; other site 177439005722 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 177439005723 Clp amino terminal domain; Region: Clp_N; pfam02861 177439005724 Clp amino terminal domain; Region: Clp_N; pfam02861 177439005725 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 177439005726 Walker A motif; other site 177439005727 ATP binding site [chemical binding]; other site 177439005728 Walker B motif; other site 177439005729 arginine finger; other site 177439005730 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 177439005731 Walker A motif; other site 177439005732 ATP binding site [chemical binding]; other site 177439005733 Walker B motif; other site 177439005734 arginine finger; other site 177439005735 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 177439005736 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 177439005737 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 177439005738 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 177439005739 TrkA-N domain; Region: TrkA_N; pfam02254 177439005740 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 177439005741 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 177439005742 tetrameric interface [polypeptide binding]; other site 177439005743 NAD binding site [chemical binding]; other site 177439005744 catalytic residues [active] 177439005745 Transcriptional regulators [Transcription]; Region: FadR; COG2186 177439005746 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177439005747 DNA-binding site [nucleotide binding]; DNA binding site 177439005748 FCD domain; Region: FCD; pfam07729 177439005749 SIR2-like domain; Region: SIR2_2; pfam13289 177439005750 Domain of unknown function DUF87; Region: DUF87; pfam01935 177439005751 AAA-like domain; Region: AAA_10; pfam12846 177439005752 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 177439005753 aspartate racemase; Region: asp_race; TIGR00035 177439005754 Sulphur transport; Region: Sulf_transp; pfam04143 177439005755 Putative cyclase; Region: Cyclase; cl00814 177439005756 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 177439005757 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 177439005758 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 177439005759 putative active site [active] 177439005760 heme pocket [chemical binding]; other site 177439005761 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 177439005762 histidine kinase; Provisional; Region: PRK13557 177439005763 putative active site [active] 177439005764 heme pocket [chemical binding]; other site 177439005765 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 177439005766 dimer interface [polypeptide binding]; other site 177439005767 phosphorylation site [posttranslational modification] 177439005768 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 177439005769 ATP binding site [chemical binding]; other site 177439005770 Mg2+ binding site [ion binding]; other site 177439005771 G-X-G motif; other site 177439005772 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 177439005773 active site 177439005774 phosphorylation site [posttranslational modification] 177439005775 intermolecular recognition site; other site 177439005776 dimerization interface [polypeptide binding]; other site 177439005777 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 177439005778 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 177439005779 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 177439005780 putative active site [active] 177439005781 heme pocket [chemical binding]; other site 177439005782 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 177439005783 histidine kinase; Provisional; Region: PRK13557 177439005784 putative active site [active] 177439005785 heme pocket [chemical binding]; other site 177439005786 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 177439005787 dimer interface [polypeptide binding]; other site 177439005788 phosphorylation site [posttranslational modification] 177439005789 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 177439005790 ATP binding site [chemical binding]; other site 177439005791 Mg2+ binding site [ion binding]; other site 177439005792 G-X-G motif; other site 177439005793 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 177439005794 active site 177439005795 phosphorylation site [posttranslational modification] 177439005796 intermolecular recognition site; other site 177439005797 dimerization interface [polypeptide binding]; other site 177439005798 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 177439005799 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 177439005800 PAS domain; Region: PAS_9; pfam13426 177439005801 putative active site [active] 177439005802 heme pocket [chemical binding]; other site 177439005803 histidine kinase; Provisional; Region: PRK13557 177439005804 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 177439005805 dimer interface [polypeptide binding]; other site 177439005806 phosphorylation site [posttranslational modification] 177439005807 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 177439005808 ATP binding site [chemical binding]; other site 177439005809 Mg2+ binding site [ion binding]; other site 177439005810 G-X-G motif; other site 177439005811 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 177439005812 active site 177439005813 phosphorylation site [posttranslational modification] 177439005814 intermolecular recognition site; other site 177439005815 dimerization interface [polypeptide binding]; other site 177439005816 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 177439005817 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 177439005818 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 177439005819 FeS/SAM binding site; other site 177439005820 TRAM domain; Region: TRAM; pfam01938 177439005821 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 177439005822 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 177439005823 tetramer interface [polypeptide binding]; other site 177439005824 active site 177439005825 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 177439005826 DHH family; Region: DHH; pfam01368 177439005827 DHHA1 domain; Region: DHHA1; pfam02272 177439005828 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 177439005829 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 177439005830 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 177439005831 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 177439005832 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 177439005833 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 177439005834 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177439005835 catalytic residue [active] 177439005836 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 177439005837 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 177439005838 FeS/SAM binding site; other site 177439005839 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 177439005840 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 177439005841 FeS/SAM binding site; other site 177439005842 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 177439005843 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 177439005844 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 177439005845 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 177439005846 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 177439005847 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 177439005848 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 177439005849 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 177439005850 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 177439005851 nucleoside/Zn binding site; other site 177439005852 dimer interface [polypeptide binding]; other site 177439005853 catalytic motif [active] 177439005854 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 177439005855 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 177439005856 inhibitor-cofactor binding pocket; inhibition site 177439005857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439005858 catalytic residue [active] 177439005859 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 177439005860 tetramerization interface [polypeptide binding]; other site 177439005861 active site 177439005862 Pantoate-beta-alanine ligase; Region: PanC; cd00560 177439005863 pantoate--beta-alanine ligase; Region: panC; TIGR00018 177439005864 active site 177439005865 ATP-binding site [chemical binding]; other site 177439005866 pantoate-binding site; other site 177439005867 HXXH motif; other site 177439005868 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 177439005869 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 177439005870 generic binding surface II; other site 177439005871 generic binding surface I; other site 177439005872 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 177439005873 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 177439005874 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177439005875 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 177439005876 ATP binding site [chemical binding]; other site 177439005877 Mg2+ binding site [ion binding]; other site 177439005878 G-X-G motif; other site 177439005879 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 177439005880 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 177439005881 putative ligand binding site [chemical binding]; other site 177439005882 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 177439005883 active site 177439005884 multimer interface [polypeptide binding]; other site 177439005885 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 177439005886 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 177439005887 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 177439005888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439005889 homodimer interface [polypeptide binding]; other site 177439005890 catalytic residue [active] 177439005891 cobyric acid synthase; Provisional; Region: PRK00784 177439005892 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 177439005893 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 177439005894 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 177439005895 catalytic triad [active] 177439005896 cobalamin synthase; Reviewed; Region: cobS; PRK00235 177439005897 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 177439005898 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 177439005899 putative dimer interface [polypeptide binding]; other site 177439005900 active site pocket [active] 177439005901 putative cataytic base [active] 177439005902 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 177439005903 homotrimer interface [polypeptide binding]; other site 177439005904 Walker A motif; other site 177439005905 GTP binding site [chemical binding]; other site 177439005906 Walker B motif; other site 177439005907 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 177439005908 catalytic core [active] 177439005909 putative methanogenesis marker protein 1; Region: methan_mark_1; TIGR03266 177439005910 YcaO-like family; Region: YcaO; pfam02624 177439005911 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 177439005912 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177439005913 binding surface 177439005914 TPR motif; other site 177439005915 TPR repeat; Region: TPR_11; pfam13414 177439005916 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 177439005917 binding surface 177439005918 TPR motif; other site 177439005919 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177439005920 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 177439005921 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 177439005922 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 177439005923 substrate binding site [chemical binding]; other site 177439005924 ligand binding site [chemical binding]; other site 177439005925 3-isopropylmalate dehydratase small subunit [Amino acid transport and metabolism]; Region: LeuD; COG0066 177439005926 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 177439005927 substrate binding site [chemical binding]; other site 177439005928 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177439005929 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 177439005930 active site 177439005931 phosphorylation site [posttranslational modification] 177439005932 intermolecular recognition site; other site 177439005933 dimerization interface [polypeptide binding]; other site 177439005934 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 177439005935 Walker A motif; other site 177439005936 ATP binding site [chemical binding]; other site 177439005937 Walker B motif; other site 177439005938 arginine finger; other site 177439005939 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177439005940 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 177439005941 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 177439005942 chaperone protein DnaJ; Provisional; Region: PRK14299 177439005943 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 177439005944 HSP70 interaction site [polypeptide binding]; other site 177439005945 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 177439005946 substrate binding site [polypeptide binding]; other site 177439005947 dimer interface [polypeptide binding]; other site 177439005948 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 177439005949 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 177439005950 ATP binding site [chemical binding]; other site 177439005951 Mg2+ binding site [ion binding]; other site 177439005952 G-X-G motif; other site 177439005953 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 177439005954 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 177439005955 3D domain; Region: 3D; cl01439 177439005956 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 177439005957 Glucose inhibited division protein A; Region: GIDA; pfam01134 177439005958 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 177439005959 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 177439005960 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 177439005961 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 177439005962 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 177439005963 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 177439005964 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 177439005965 intersubunit interface [polypeptide binding]; other site 177439005966 active site 177439005967 catalytic residue [active] 177439005968 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 177439005969 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 177439005970 substrate binding site [chemical binding]; other site 177439005971 dimer interface [polypeptide binding]; other site 177439005972 ATP binding site [chemical binding]; other site 177439005973 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 177439005974 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 177439005975 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 177439005976 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 177439005977 ATP binding site [chemical binding]; other site 177439005978 Mg++ binding site [ion binding]; other site 177439005979 motif III; other site 177439005980 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 177439005981 nucleotide binding region [chemical binding]; other site 177439005982 ATP-binding site [chemical binding]; other site 177439005983 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 177439005984 putative RNA binding site [nucleotide binding]; other site 177439005985 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 177439005986 integron integrase; Region: integrase_gron; TIGR02249 177439005987 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 177439005988 active site 177439005989 DNA binding site [nucleotide binding] 177439005990 Int/Topo IB signature motif; other site 177439005991 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 177439005992 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439005993 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439005994 metal binding site [ion binding]; metal-binding site 177439005995 active site 177439005996 I-site; other site 177439005997 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 177439005998 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439005999 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439006000 metal binding site [ion binding]; metal-binding site 177439006001 active site 177439006002 I-site; other site 177439006003 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177439006004 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 177439006005 substrate binding pocket [chemical binding]; other site 177439006006 membrane-bound complex binding site; other site 177439006007 hinge residues; other site 177439006008 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177439006009 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 177439006010 dimer interface [polypeptide binding]; other site 177439006011 conserved gate region; other site 177439006012 putative PBP binding loops; other site 177439006013 ABC-ATPase subunit interface; other site 177439006014 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 177439006015 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 177439006016 Walker A/P-loop; other site 177439006017 ATP binding site [chemical binding]; other site 177439006018 Q-loop/lid; other site 177439006019 ABC transporter signature motif; other site 177439006020 Walker B; other site 177439006021 D-loop; other site 177439006022 H-loop/switch region; other site 177439006023 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 177439006024 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 177439006025 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 177439006026 heme-binding residues [chemical binding]; other site 177439006027 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 177439006028 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 177439006029 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 177439006030 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 177439006031 PIF1-like helicase; Region: PIF1; pfam05970 177439006032 AAA domain; Region: AAA_30; pfam13604 177439006033 Family description; Region: UvrD_C_2; pfam13538 177439006034 HRDC domain; Region: HRDC; pfam00570 177439006035 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 177439006036 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 177439006037 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 177439006038 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177439006039 active site 177439006040 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 177439006041 large terminase protein; Provisional; Region: 17; PHA02533 177439006042 Terminase small subunit; Region: Terminase_2; pfam03592 177439006043 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 177439006044 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 177439006045 active site 177439006046 DNA binding site [nucleotide binding] 177439006047 Int/Topo IB signature motif; other site 177439006048 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 177439006049 active site 177439006050 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 177439006051 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439006052 Zn2+ binding site [ion binding]; other site 177439006053 Mg2+ binding site [ion binding]; other site 177439006054 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 177439006055 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; pfam09524 177439006056 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 177439006057 Catalytic site [active] 177439006058 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 177439006059 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 177439006060 homodimer interface [polypeptide binding]; other site 177439006061 putative active site [active] 177439006062 catalytic site [active] 177439006063 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 177439006064 active site 177439006065 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 177439006066 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 177439006067 cofactor binding site; other site 177439006068 DNA binding site [nucleotide binding] 177439006069 substrate interaction site [chemical binding]; other site 177439006070 Type III pantothenate kinase; Region: Pan_kinase; cl17198 177439006071 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 177439006072 Mrr N-terminal domain; Region: Mrr_N; pfam14338 177439006073 Restriction endonuclease; Region: Mrr_cat; pfam04471 177439006074 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 177439006075 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 177439006076 Sel1-like repeats; Region: SEL1; smart00671 177439006077 Sel1-like repeats; Region: SEL1; smart00671 177439006078 Sel1-like repeats; Region: SEL1; smart00671 177439006079 Sel1-like repeats; Region: SEL1; smart00671 177439006080 Sel1-like repeats; Region: SEL1; smart00671 177439006081 Sel1-like repeats; Region: SEL1; smart00671 177439006082 Hemerythrin; Region: Hemerythrin; cd12107 177439006083 Fe binding site [ion binding]; other site 177439006084 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439006085 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439006086 metal binding site [ion binding]; metal-binding site 177439006087 active site 177439006088 I-site; other site 177439006089 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 177439006090 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 177439006091 active site 177439006092 DNA binding site [nucleotide binding] 177439006093 Int/Topo IB signature motif; other site 177439006094 Pilin (bacterial filament); Region: Pilin; pfam00114 177439006095 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 177439006096 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl17861 177439006097 Fic family protein [Function unknown]; Region: COG3177 177439006098 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 177439006099 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 177439006100 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 177439006101 non-specific DNA binding site [nucleotide binding]; other site 177439006102 salt bridge; other site 177439006103 sequence-specific DNA binding site [nucleotide binding]; other site 177439006104 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 177439006105 Chloramphenicol acetyltransferase; Region: CAT; smart01059 177439006106 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 177439006107 serine/threonine protein kinase; Provisional; Region: PRK11768 177439006108 Predicted membrane protein [Function unknown]; Region: COG2860 177439006109 UPF0126 domain; Region: UPF0126; pfam03458 177439006110 Predicted membrane protein [Function unknown]; Region: COG2860 177439006111 UPF0126 domain; Region: UPF0126; pfam03458 177439006112 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 177439006113 DNA-binding site [nucleotide binding]; DNA binding site 177439006114 RNA-binding motif; other site 177439006115 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 177439006116 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 177439006117 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 177439006118 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 177439006119 transmembrane helices; other site 177439006120 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439006121 Zn2+ binding site [ion binding]; other site 177439006122 Mg2+ binding site [ion binding]; other site 177439006123 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 177439006124 Autotransporter beta-domain; Region: Autotransporter; smart00869 177439006125 Autotransporter beta-domain; Region: Autotransporter; smart00869 177439006126 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 177439006127 FAD binding domain; Region: FAD_binding_4; pfam01565 177439006128 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 177439006129 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 177439006130 L-lactate permease; Region: Lactate_perm; cl00701 177439006131 Response regulator receiver domain; Region: Response_reg; pfam00072 177439006132 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 177439006133 active site 177439006134 phosphorylation site [posttranslational modification] 177439006135 intermolecular recognition site; other site 177439006136 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 177439006137 active site 177439006138 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 177439006139 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 177439006140 ATP binding site [chemical binding]; other site 177439006141 putative Mg++ binding site [ion binding]; other site 177439006142 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 177439006143 nucleotide binding region [chemical binding]; other site 177439006144 ATP-binding site [chemical binding]; other site 177439006145 Helicase associated domain (HA2); Region: HA2; pfam04408 177439006146 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 177439006147 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 177439006148 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 177439006149 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 177439006150 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 177439006151 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177439006152 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 177439006153 putative dimerization interface [polypeptide binding]; other site 177439006154 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177439006155 Coenzyme A binding pocket [chemical binding]; other site 177439006156 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 177439006157 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 177439006158 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 177439006159 Phosphopantetheine attachment site; Region: PP-binding; cl09936 177439006160 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 177439006161 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 177439006162 E3 interaction surface; other site 177439006163 lipoyl attachment site [posttranslational modification]; other site 177439006164 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 177439006165 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 177439006166 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 177439006167 alpha subunit interface [polypeptide binding]; other site 177439006168 TPP binding site [chemical binding]; other site 177439006169 heterodimer interface [polypeptide binding]; other site 177439006170 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 177439006171 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 177439006172 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 177439006173 tetramer interface [polypeptide binding]; other site 177439006174 TPP-binding site [chemical binding]; other site 177439006175 heterodimer interface [polypeptide binding]; other site 177439006176 phosphorylation loop region [posttranslational modification] 177439006177 acetyl-CoA synthetase; Provisional; Region: PRK04319 177439006178 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 177439006179 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 177439006180 active site 177439006181 acyl-activating enzyme (AAE) consensus motif; other site 177439006182 putative CoA binding site [chemical binding]; other site 177439006183 AMP binding site [chemical binding]; other site 177439006184 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 177439006185 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 177439006186 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 177439006187 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 177439006188 active site 177439006189 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 177439006190 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11869 177439006191 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 177439006192 TPP-binding site [chemical binding]; other site 177439006193 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 177439006194 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 177439006195 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 177439006196 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 177439006197 dimer interface [polypeptide binding]; other site 177439006198 PYR/PP interface [polypeptide binding]; other site 177439006199 TPP binding site [chemical binding]; other site 177439006200 substrate binding site [chemical binding]; other site 177439006201 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 177439006202 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 177439006203 Bacterial Ig-like domain; Region: Big_5; pfam13205 177439006204 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 177439006205 Ca2+ binding site [ion binding]; other site 177439006206 Bacterial Ig-like domain; Region: Big_5; pfam13205 177439006207 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 177439006208 binding surface 177439006209 TPR motif; other site 177439006210 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 177439006211 binding surface 177439006212 TPR motif; other site 177439006213 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 177439006214 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 177439006215 TPR motif; other site 177439006216 binding surface 177439006217 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 177439006218 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 177439006219 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 177439006220 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439006221 Walker A/P-loop; other site 177439006222 ATP binding site [chemical binding]; other site 177439006223 Q-loop/lid; other site 177439006224 ABC transporter signature motif; other site 177439006225 Walker B; other site 177439006226 D-loop; other site 177439006227 H-loop/switch region; other site 177439006228 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 177439006229 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 177439006230 E3 interaction surface; other site 177439006231 lipoyl attachment site [posttranslational modification]; other site 177439006232 HlyD family secretion protein; Region: HlyD_3; pfam13437 177439006233 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 177439006234 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 177439006235 active site 177439006236 nucleotide binding site [chemical binding]; other site 177439006237 HIGH motif; other site 177439006238 KMSKS motif; other site 177439006239 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 177439006240 ligand-binding site [chemical binding]; other site 177439006241 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439006242 Zn2+ binding site [ion binding]; other site 177439006243 Mg2+ binding site [ion binding]; other site 177439006244 Amino acid permease; Region: AA_permease_2; pfam13520 177439006245 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 177439006246 active site residue [active] 177439006247 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 177439006248 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 177439006249 active site residue [active] 177439006250 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 177439006251 active site residue [active] 177439006252 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 177439006253 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 177439006254 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 177439006255 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 177439006256 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 177439006257 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 177439006258 HlyD family secretion protein; Region: HlyD_3; pfam13437 177439006259 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177439006260 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177439006261 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 177439006262 FeS/SAM binding site; other site 177439006263 CHASE4 domain; Region: CHASE4; pfam05228 177439006264 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 177439006265 dimerization interface [polypeptide binding]; other site 177439006266 PAS domain S-box; Region: sensory_box; TIGR00229 177439006267 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 177439006268 putative active site [active] 177439006269 heme pocket [chemical binding]; other site 177439006270 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439006271 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439006272 metal binding site [ion binding]; metal-binding site 177439006273 active site 177439006274 I-site; other site 177439006275 Autotransporter beta-domain; Region: Autotransporter; smart00869 177439006276 MarR family; Region: MarR; pfam01047 177439006277 Predicted permeases [General function prediction only]; Region: COG0701 177439006278 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 177439006279 active site residue [active] 177439006280 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 177439006281 active site residue [active] 177439006282 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177439006283 Protein of unknown function (DUF445); Region: DUF445; pfam04286 177439006284 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 177439006285 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 177439006286 motif II; other site 177439006287 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 177439006288 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 177439006289 putative Iron-sulfur protein interface [polypeptide binding]; other site 177439006290 proximal heme binding site [chemical binding]; other site 177439006291 distal heme binding site [chemical binding]; other site 177439006292 putative dimer interface [polypeptide binding]; other site 177439006293 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 177439006294 L-aspartate oxidase; Provisional; Region: PRK06175 177439006295 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 177439006296 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 177439006297 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 177439006298 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 177439006299 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177439006300 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 177439006301 Integrase core domain; Region: rve; pfam00665 177439006302 Integrase core domain; Region: rve_3; pfam13683 177439006303 HTH-like domain; Region: HTH_21; pfam13276 177439006304 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 177439006305 SnoaL-like domain; Region: SnoaL_2; pfam12680 177439006306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177439006307 NAD(P) binding site [chemical binding]; other site 177439006308 active site 177439006309 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 177439006310 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177439006311 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 177439006312 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 177439006313 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 177439006314 S-adenosylmethionine binding site [chemical binding]; other site 177439006315 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 177439006316 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 177439006317 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 177439006318 catalytic residues [active] 177439006319 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 177439006320 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 177439006321 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 177439006322 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 177439006323 putative active site [active] 177439006324 metal binding site [ion binding]; metal-binding site 177439006325 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 177439006326 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 177439006327 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 177439006328 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 177439006329 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 177439006330 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 177439006331 FeS/SAM binding site; other site 177439006332 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 177439006333 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 177439006334 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 177439006335 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl17861 177439006336 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 177439006337 aminopeptidase N; Provisional; Region: pepN; PRK14015 177439006338 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 177439006339 active site 177439006340 Zn binding site [ion binding]; other site 177439006341 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 177439006342 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 177439006343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439006344 homodimer interface [polypeptide binding]; other site 177439006345 catalytic residue [active] 177439006346 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 177439006347 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 177439006348 imidazole glycerol phosphate synthase hisHF; Region: PLN02617 177439006349 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 177439006350 putative active site [active] 177439006351 oxyanion strand; other site 177439006352 catalytic triad [active] 177439006353 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 177439006354 substrate binding site [chemical binding]; other site 177439006355 glutamase interaction surface [polypeptide binding]; other site 177439006356 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 177439006357 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 177439006358 Walker A motif; other site 177439006359 homodimer interface [polypeptide binding]; other site 177439006360 ATP binding site [chemical binding]; other site 177439006361 hydroxycobalamin binding site [chemical binding]; other site 177439006362 Walker B motif; other site 177439006363 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 177439006364 IHF dimer interface [polypeptide binding]; other site 177439006365 IHF - DNA interface [nucleotide binding]; other site 177439006366 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 177439006367 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 177439006368 Ligand Binding Site [chemical binding]; other site 177439006369 Chorismate mutase type II; Region: CM_2; pfam01817 177439006370 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 177439006371 Prephenate dehydratase; Region: PDT; pfam00800 177439006372 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 177439006373 putative L-Phe binding site [chemical binding]; other site 177439006374 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 177439006375 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 177439006376 FeS/SAM binding site; other site 177439006377 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 177439006378 tRNA threonylcarbamoyl adenosine modification protein YgjD; Region: T6A_YgjD; TIGR03723 177439006379 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 177439006380 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 177439006381 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 177439006382 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 177439006383 S-adenosylmethionine binding site [chemical binding]; other site 177439006384 S4 domain; Region: S4_2; pfam13275 177439006385 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 177439006386 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 177439006387 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 177439006388 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 177439006389 DHHA2 domain; Region: DHHA2; pfam02833 177439006390 SprA-related family; Region: SprA-related; pfam12118 177439006391 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 177439006392 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 177439006393 active site 177439006394 metal binding site [ion binding]; metal-binding site 177439006395 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 177439006396 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 177439006397 N-acetyl-D-glucosamine binding site [chemical binding]; other site 177439006398 catalytic residue [active] 177439006399 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 177439006400 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177439006401 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177439006402 ABC transporter; Region: ABC_tran_2; pfam12848 177439006403 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177439006404 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 177439006405 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 177439006406 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 177439006407 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 177439006408 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 177439006409 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 177439006410 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 177439006411 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 177439006412 AIR carboxylase; Region: AIRC; pfam00731 177439006413 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 177439006414 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 177439006415 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 177439006416 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 177439006417 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 177439006418 binding surface 177439006419 TPR motif; other site 177439006420 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177439006421 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 177439006422 TPR motif; other site 177439006423 binding surface 177439006424 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 177439006425 TPR motif; other site 177439006426 TPR repeat; Region: TPR_11; pfam13414 177439006427 binding surface 177439006428 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 177439006429 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 177439006430 inhibitor-cofactor binding pocket; inhibition site 177439006431 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439006432 catalytic residue [active] 177439006433 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 177439006434 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 177439006435 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 177439006436 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 177439006437 DNA binding residues [nucleotide binding] 177439006438 GTP-binding protein LepA; Provisional; Region: PRK05433 177439006439 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 177439006440 G1 box; other site 177439006441 putative GEF interaction site [polypeptide binding]; other site 177439006442 GTP/Mg2+ binding site [chemical binding]; other site 177439006443 Switch I region; other site 177439006444 G2 box; other site 177439006445 G3 box; other site 177439006446 Switch II region; other site 177439006447 G4 box; other site 177439006448 G5 box; other site 177439006449 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 177439006450 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 177439006451 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 177439006452 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 177439006453 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 177439006454 putative ligand binding site [chemical binding]; other site 177439006455 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 177439006456 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 177439006457 putative acyl-acceptor binding pocket; other site 177439006458 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 177439006459 EamA-like transporter family; Region: EamA; pfam00892 177439006460 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177439006461 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 177439006462 ligand binding site [chemical binding]; other site 177439006463 flexible hinge region; other site 177439006464 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 177439006465 putative switch regulator; other site 177439006466 non-specific DNA interactions [nucleotide binding]; other site 177439006467 DNA binding site [nucleotide binding] 177439006468 sequence specific DNA binding site [nucleotide binding]; other site 177439006469 putative cAMP binding site [chemical binding]; other site 177439006470 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 177439006471 active site 177439006472 DNA polymerase IV; Validated; Region: PRK02406 177439006473 DNA binding site [nucleotide binding] 177439006474 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 177439006475 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 177439006476 oligomer interface [polypeptide binding]; other site 177439006477 tandem repeat interface [polypeptide binding]; other site 177439006478 active site residues [active] 177439006479 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 177439006480 tandem repeat interface [polypeptide binding]; other site 177439006481 oligomer interface [polypeptide binding]; other site 177439006482 active site residues [active] 177439006483 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 177439006484 DNA-binding site [nucleotide binding]; DNA binding site 177439006485 RNA-binding motif; other site 177439006486 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 177439006487 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 177439006488 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 177439006489 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 177439006490 substrate binding pocket [chemical binding]; other site 177439006491 dimer interface [polypeptide binding]; other site 177439006492 inhibitor binding site; inhibition site 177439006493 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 177439006494 B12 binding site [chemical binding]; other site 177439006495 cobalt ligand [ion binding]; other site 177439006496 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 177439006497 malate dehydrogenase; Provisional; Region: PRK13529 177439006498 Malic enzyme, N-terminal domain; Region: malic; pfam00390 177439006499 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 177439006500 NAD(P) binding site [chemical binding]; other site 177439006501 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 177439006502 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 177439006503 FeS/SAM binding site; other site 177439006504 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 177439006505 HDOD domain; Region: HDOD; pfam08668 177439006506 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439006507 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439006508 metal binding site [ion binding]; metal-binding site 177439006509 active site 177439006510 I-site; other site 177439006511 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 177439006512 primosomal protein N' Region: priA; TIGR00595 177439006513 ATP binding site [chemical binding]; other site 177439006514 putative Mg++ binding site [ion binding]; other site 177439006515 helicase superfamily c-terminal domain; Region: HELICc; smart00490 177439006516 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 177439006517 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 177439006518 ATP binding site [chemical binding]; other site 177439006519 putative Mg++ binding site [ion binding]; other site 177439006520 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 177439006521 nucleotide binding region [chemical binding]; other site 177439006522 ATP-binding site [chemical binding]; other site 177439006523 Helicase associated domain (HA2); Region: HA2; pfam04408 177439006524 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 177439006525 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 177439006526 bidirectional hydrogenase complex protein HoxE; Reviewed; Region: PRK07571 177439006527 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 177439006528 putative dimer interface [polypeptide binding]; other site 177439006529 [2Fe-2S] cluster binding site [ion binding]; other site 177439006530 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 177439006531 dimer interface [polypeptide binding]; other site 177439006532 [2Fe-2S] cluster binding site [ion binding]; other site 177439006533 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 177439006534 SLBB domain; Region: SLBB; pfam10531 177439006535 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 177439006536 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 177439006537 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 177439006538 catalytic loop [active] 177439006539 iron binding site [ion binding]; other site 177439006540 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 177439006541 4Fe-4S binding domain; Region: Fer4; pfam00037 177439006542 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 177439006543 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 177439006544 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 177439006545 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 177439006546 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 177439006547 phosphate binding site [ion binding]; other site 177439006548 putative substrate binding pocket [chemical binding]; other site 177439006549 dimer interface [polypeptide binding]; other site 177439006550 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 177439006551 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 177439006552 oligomer interface; other site 177439006553 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 177439006554 S-adenosylmethionine binding site [chemical binding]; other site 177439006555 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 177439006556 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 177439006557 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 177439006558 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 177439006559 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 177439006560 putative metal binding site; other site 177439006561 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 177439006562 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 177439006563 NAD binding site [chemical binding]; other site 177439006564 substrate binding site [chemical binding]; other site 177439006565 homodimer interface [polypeptide binding]; other site 177439006566 active site 177439006567 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 177439006568 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 177439006569 substrate binding site; other site 177439006570 tetramer interface; other site 177439006571 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 177439006572 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 177439006573 NADP binding site [chemical binding]; other site 177439006574 active site 177439006575 putative substrate binding site [chemical binding]; other site 177439006576 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 177439006577 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177439006578 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 177439006579 putative ADP-binding pocket [chemical binding]; other site 177439006580 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 177439006581 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 177439006582 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 177439006583 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 177439006584 Walker A motif; other site 177439006585 ATP binding site [chemical binding]; other site 177439006586 Walker B motif; other site 177439006587 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177439006588 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 177439006589 ligand binding site [chemical binding]; other site 177439006590 flexible hinge region; other site 177439006591 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]; Region: MIS1; COG2759 177439006592 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 177439006593 Potassium binding sites [ion binding]; other site 177439006594 Cesium cation binding sites [ion binding]; other site 177439006595 Thymidylate synthase complementing protein; Region: Thy1; cl03630 177439006596 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 177439006597 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 177439006598 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 177439006599 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177439006600 catalytic residue [active] 177439006601 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 177439006602 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 177439006603 trimerization site [polypeptide binding]; other site 177439006604 active site 177439006605 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 177439006606 NifU-like domain; Region: NifU; pfam01106 177439006607 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 177439006608 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 177439006609 active site 177439006610 substrate binding site [chemical binding]; other site 177439006611 metal binding site [ion binding]; metal-binding site 177439006612 Uncharacterized conserved protein [Function unknown]; Region: COG2835 177439006613 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 177439006614 pyrroline-5-carboxylate reductase; Region: PLN02688 177439006615 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 177439006616 ATP-NAD kinase; Region: NAD_kinase; pfam01513 177439006617 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177439006618 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 177439006619 active site 177439006620 phosphorylation site [posttranslational modification] 177439006621 intermolecular recognition site; other site 177439006622 dimerization interface [polypeptide binding]; other site 177439006623 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 177439006624 Walker A motif; other site 177439006625 ATP binding site [chemical binding]; other site 177439006626 Walker B motif; other site 177439006627 arginine finger; other site 177439006628 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 177439006629 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 177439006630 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 177439006631 active site 177439006632 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 177439006633 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 177439006634 Helix-hairpin-helix motif; Region: HHH; pfam00633 177439006635 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 177439006636 active site 177439006637 FMN binding site [chemical binding]; other site 177439006638 substrate binding site [chemical binding]; other site 177439006639 3Fe-4S cluster binding site [ion binding]; other site 177439006640 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 177439006641 active site 177439006642 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 177439006643 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 177439006644 Walker A motif; other site 177439006645 ATP binding site [chemical binding]; other site 177439006646 Walker B motif; other site 177439006647 arginine finger; other site 177439006648 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177439006649 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 177439006650 homotrimer interaction site [polypeptide binding]; other site 177439006651 putative active site [active] 177439006652 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 177439006653 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 177439006654 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 177439006655 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 177439006656 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177439006657 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 177439006658 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 177439006659 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 177439006660 hydroxyglutarate oxidase; Provisional; Region: PRK11728 177439006661 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 177439006662 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 177439006663 active site 177439006664 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 177439006665 putative RNA binding site [nucleotide binding]; other site 177439006666 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 177439006667 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 177439006668 homodimer interaction site [polypeptide binding]; other site 177439006669 cofactor binding site; other site 177439006670 U2 snRNP spliceosome subunit [RNA processing and modification]; Region: HSH155; COG5181 177439006671 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439006672 Zn2+ binding site [ion binding]; other site 177439006673 Mg2+ binding site [ion binding]; other site 177439006674 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439006675 Zn2+ binding site [ion binding]; other site 177439006676 Mg2+ binding site [ion binding]; other site 177439006677 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 177439006678 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 177439006679 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439006680 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439006681 dimer interface [polypeptide binding]; other site 177439006682 putative CheW interface [polypeptide binding]; other site 177439006683 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 177439006684 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 177439006685 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 177439006686 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 177439006687 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 177439006688 active site 177439006689 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 177439006690 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 177439006691 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 177439006692 S-adenosylmethionine binding site [chemical binding]; other site 177439006693 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 177439006694 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 177439006695 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 177439006696 Walker A motif; other site 177439006697 ATP binding site [chemical binding]; other site 177439006698 Walker B motif; other site 177439006699 arginine finger; other site 177439006700 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 177439006701 thiamine monophosphate kinase; Provisional; Region: PRK05731 177439006702 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 177439006703 ATP binding site [chemical binding]; other site 177439006704 dimerization interface [polypeptide binding]; other site 177439006705 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 177439006706 catalytic motif [active] 177439006707 Zn binding site [ion binding]; other site 177439006708 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 177439006709 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 177439006710 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 177439006711 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 177439006712 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 177439006713 Prephenate dehydratase; Region: PDT; pfam00800 177439006714 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 177439006715 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 177439006716 Bacterial SH3 domain; Region: SH3_4; pfam06347 177439006717 Bacterial SH3 domain; Region: SH3_4; pfam06347 177439006718 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 177439006719 dimer interface [polypeptide binding]; other site 177439006720 catalytic triad [active] 177439006721 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 177439006722 nucleotide binding site [chemical binding]; other site 177439006723 Type III pantothenate kinase; Region: Pan_kinase; cl17198 177439006724 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 177439006725 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 177439006726 ATP binding site [chemical binding]; other site 177439006727 Mg2+ binding site [ion binding]; other site 177439006728 G-X-G motif; other site 177439006729 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 177439006730 anchoring element; other site 177439006731 dimer interface [polypeptide binding]; other site 177439006732 ATP binding site [chemical binding]; other site 177439006733 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 177439006734 active site 177439006735 putative metal-binding site [ion binding]; other site 177439006736 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 177439006737 DNA topoisomerase IV subunit A; Provisional; Region: PRK09631 177439006738 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; cl00148 177439006739 CAP-like domain; other site 177439006740 active site 177439006741 primary dimer interface [polypeptide binding]; other site 177439006742 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 177439006743 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 177439006744 S-adenosylmethionine binding site [chemical binding]; other site 177439006745 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 177439006746 TM2 domain; Region: TM2; pfam05154 177439006747 VacJ like lipoprotein; Region: VacJ; cl01073 177439006748 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 177439006749 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 177439006750 mce related protein; Region: MCE; pfam02470 177439006751 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 177439006752 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 177439006753 Walker A/P-loop; other site 177439006754 ATP binding site [chemical binding]; other site 177439006755 Q-loop/lid; other site 177439006756 ABC transporter signature motif; other site 177439006757 Walker B; other site 177439006758 D-loop; other site 177439006759 H-loop/switch region; other site 177439006760 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 177439006761 Permease; Region: Permease; pfam02405 177439006762 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 177439006763 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 177439006764 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 177439006765 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 177439006766 active site 177439006767 phosphorylation site [posttranslational modification] 177439006768 intermolecular recognition site; other site 177439006769 dimerization interface [polypeptide binding]; other site 177439006770 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439006771 Zn2+ binding site [ion binding]; other site 177439006772 Mg2+ binding site [ion binding]; other site 177439006773 CHASE domain; Region: CHASE; pfam03924 177439006774 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 177439006775 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 177439006776 putative active site [active] 177439006777 heme pocket [chemical binding]; other site 177439006778 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 177439006779 dimer interface [polypeptide binding]; other site 177439006780 phosphorylation site [posttranslational modification] 177439006781 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 177439006782 ATP binding site [chemical binding]; other site 177439006783 Mg2+ binding site [ion binding]; other site 177439006784 G-X-G motif; other site 177439006785 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177439006786 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 177439006787 active site 177439006788 phosphorylation site [posttranslational modification] 177439006789 intermolecular recognition site; other site 177439006790 dimerization interface [polypeptide binding]; other site 177439006791 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 177439006792 Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane]; Region: PgsA; COG2843 177439006793 LysE type translocator; Region: LysE; cl00565 177439006794 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 177439006795 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 177439006796 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 177439006797 putative active site [active] 177439006798 putative metal binding site [ion binding]; other site 177439006799 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 177439006800 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 177439006801 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 177439006802 dimer interface [polypeptide binding]; other site 177439006803 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 177439006804 metal binding site [ion binding]; metal-binding site 177439006805 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 177439006806 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 177439006807 potential catalytic triad [active] 177439006808 conserved cys residue [active] 177439006809 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 177439006810 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 177439006811 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 177439006812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439006813 Walker A/P-loop; other site 177439006814 ATP binding site [chemical binding]; other site 177439006815 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 177439006816 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 177439006817 PAS domain S-box; Region: sensory_box; TIGR00229 177439006818 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 177439006819 putative active site [active] 177439006820 heme pocket [chemical binding]; other site 177439006821 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439006822 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439006823 metal binding site [ion binding]; metal-binding site 177439006824 active site 177439006825 I-site; other site 177439006826 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; pfam09855 177439006827 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 177439006828 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 177439006829 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 177439006830 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 177439006831 Walker A motif; other site 177439006832 ATP binding site [chemical binding]; other site 177439006833 Walker B motif; other site 177439006834 arginine finger; other site 177439006835 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 177439006836 Uncharacterized conserved protein [Function unknown]; Region: COG1262 177439006837 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 177439006838 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 177439006839 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 177439006840 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177439006841 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177439006842 Uncharacterized conserved protein [Function unknown]; Region: COG1683 177439006843 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 177439006844 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 177439006845 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 177439006846 TPP-binding site [chemical binding]; other site 177439006847 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 177439006848 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 177439006849 dimer interface [polypeptide binding]; other site 177439006850 PYR/PP interface [polypeptide binding]; other site 177439006851 TPP binding site [chemical binding]; other site 177439006852 substrate binding site [chemical binding]; other site 177439006853 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 177439006854 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177439006855 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177439006856 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 177439006857 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 177439006858 putative substrate translocation pore; other site 177439006859 Transcriptional regulators [Transcription]; Region: FadR; COG2186 177439006860 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177439006861 DNA-binding site [nucleotide binding]; DNA binding site 177439006862 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 177439006863 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 177439006864 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 177439006865 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 177439006866 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 177439006867 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 177439006868 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 177439006869 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 177439006870 dimer interface [polypeptide binding]; other site 177439006871 PYR/PP interface [polypeptide binding]; other site 177439006872 TPP binding site [chemical binding]; other site 177439006873 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 177439006874 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 177439006875 TPP-binding site [chemical binding]; other site 177439006876 dimer interface [polypeptide binding]; other site 177439006877 aldehyde dehydrogenase family 7 member; Region: PLN02315 177439006878 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 177439006879 tetrameric interface [polypeptide binding]; other site 177439006880 NAD binding site [chemical binding]; other site 177439006881 catalytic residues [active] 177439006882 L-lysine aminotransferase; Provisional; Region: PRK08297 177439006883 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 177439006884 inhibitor-cofactor binding pocket; inhibition site 177439006885 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439006886 catalytic residue [active] 177439006887 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 177439006888 FAD binding domain; Region: FAD_binding_4; pfam01565 177439006889 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 177439006890 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 177439006891 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 177439006892 Transcriptional regulators [Transcription]; Region: GntR; COG1802 177439006893 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177439006894 DNA-binding site [nucleotide binding]; DNA binding site 177439006895 FCD domain; Region: FCD; pfam07729 177439006896 ATP-dependent protease Lon; Provisional; Region: PRK13765 177439006897 glutamate formiminotransferase; Region: FtcD; TIGR02024 177439006898 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 177439006899 Formiminotransferase domain; Region: FTCD; pfam02971 177439006900 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 177439006901 imidazolonepropionase; Validated; Region: PRK09356 177439006902 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 177439006903 active site 177439006904 urocanate hydratase; Provisional; Region: PRK05414 177439006905 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 177439006906 active sites [active] 177439006907 tetramer interface [polypeptide binding]; other site 177439006908 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 177439006909 nucleoside/Zn binding site; other site 177439006910 dimer interface [polypeptide binding]; other site 177439006911 catalytic motif [active] 177439006912 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 177439006913 active site 177439006914 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 177439006915 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 177439006916 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 177439006917 dimerization interface 3.5A [polypeptide binding]; other site 177439006918 active site 177439006919 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 177439006920 CheW-like domain; Region: CheW; pfam01584 177439006921 CheW-like domain; Region: CheW; pfam01584 177439006922 PAS domain; Region: PAS_9; pfam13426 177439006923 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 177439006924 PAS domain; Region: PAS_9; pfam13426 177439006925 putative active site [active] 177439006926 heme pocket [chemical binding]; other site 177439006927 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 177439006928 PAS domain; Region: PAS_9; pfam13426 177439006929 putative active site [active] 177439006930 heme pocket [chemical binding]; other site 177439006931 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 177439006932 PAS domain; Region: PAS_9; pfam13426 177439006933 putative active site [active] 177439006934 heme pocket [chemical binding]; other site 177439006935 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 177439006936 PAS domain; Region: PAS_9; pfam13426 177439006937 putative active site [active] 177439006938 heme pocket [chemical binding]; other site 177439006939 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 177439006940 PAS domain; Region: PAS_9; pfam13426 177439006941 putative active site [active] 177439006942 heme pocket [chemical binding]; other site 177439006943 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439006944 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439006945 dimer interface [polypeptide binding]; other site 177439006946 putative CheW interface [polypeptide binding]; other site 177439006947 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 177439006948 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 177439006949 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 177439006950 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 177439006951 active site 177439006952 Zn binding site [ion binding]; other site 177439006953 Flagellin N-methylase; Region: FliB; pfam03692 177439006954 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 177439006955 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 177439006956 active site 177439006957 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 177439006958 S-adenosylmethionine binding site [chemical binding]; other site 177439006959 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 177439006960 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 177439006961 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 177439006962 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 177439006963 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 177439006964 Protein of unknown function DUF262; Region: DUF262; pfam03235 177439006965 Uncharacterized conserved protein [Function unknown]; Region: COG1479 177439006966 Protein of unknown function DUF262; Region: DUF262; pfam03235 177439006967 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 177439006968 Uncharacterized conserved protein [Function unknown]; Region: COG1479 177439006969 Protein of unknown function DUF262; Region: DUF262; pfam03235 177439006970 biotin synthase; Provisional; Region: PRK07094 177439006971 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 177439006972 FeS/SAM binding site; other site 177439006973 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 177439006974 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 177439006975 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 177439006976 FeS/SAM binding site; other site 177439006977 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 177439006978 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 177439006979 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 177439006980 G1 box; other site 177439006981 GTP/Mg2+ binding site [chemical binding]; other site 177439006982 Switch I region; other site 177439006983 G2 box; other site 177439006984 Switch II region; other site 177439006985 G3 box; other site 177439006986 G4 box; other site 177439006987 G5 box; other site 177439006988 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 177439006989 4Fe-4S binding domain; Region: Fer4_6; pfam12837 177439006990 4Fe-4S binding domain; Region: Fer4; pfam00037 177439006991 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 177439006992 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 177439006993 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 177439006994 Walker A motif; other site 177439006995 ATP binding site [chemical binding]; other site 177439006996 Walker B motif; other site 177439006997 arginine finger; other site 177439006998 Protein of unknown function (DUF524); Region: DUF524; pfam04411 177439006999 Flagellin N-methylase; Region: FliB; pfam03692 177439007000 Bacitracin resistance protein BacA; Region: BacA; pfam02673 177439007001 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 177439007002 putative ADP-ribose binding site [chemical binding]; other site 177439007003 putative active site [active] 177439007004 fumarate hydratase; Reviewed; Region: fumC; PRK00485 177439007005 Class II fumarases; Region: Fumarase_classII; cd01362 177439007006 active site 177439007007 tetramer interface [polypeptide binding]; other site 177439007008 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 177439007009 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 177439007010 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 177439007011 HAMP domain; Region: HAMP; pfam00672 177439007012 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 177439007013 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 177439007014 putative active site [active] 177439007015 heme pocket [chemical binding]; other site 177439007016 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 177439007017 putative active site [active] 177439007018 heme pocket [chemical binding]; other site 177439007019 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 177439007020 dimer interface [polypeptide binding]; other site 177439007021 phosphorylation site [posttranslational modification] 177439007022 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 177439007023 ATP binding site [chemical binding]; other site 177439007024 Mg2+ binding site [ion binding]; other site 177439007025 G-X-G motif; other site 177439007026 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177439007027 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 177439007028 active site 177439007029 phosphorylation site [posttranslational modification] 177439007030 intermolecular recognition site; other site 177439007031 dimerization interface [polypeptide binding]; other site 177439007032 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 177439007033 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 177439007034 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177439007035 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 177439007036 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 177439007037 Domain of unknown function (DUF386); Region: DUF386; cl01047 177439007038 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 177439007039 MPT binding site; other site 177439007040 trimer interface [polypeptide binding]; other site 177439007041 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 177439007042 elongation factor G; Reviewed; Region: PRK12740 177439007043 G1 box; other site 177439007044 putative GEF interaction site [polypeptide binding]; other site 177439007045 GTP/Mg2+ binding site [chemical binding]; other site 177439007046 Switch I region; other site 177439007047 G2 box; other site 177439007048 G3 box; other site 177439007049 Switch II region; other site 177439007050 G4 box; other site 177439007051 G5 box; other site 177439007052 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 177439007053 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 177439007054 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 177439007055 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 177439007056 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 177439007057 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 177439007058 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 177439007059 FMN binding site [chemical binding]; other site 177439007060 active site 177439007061 catalytic residues [active] 177439007062 substrate binding site [chemical binding]; other site 177439007063 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 177439007064 ligand binding site [chemical binding]; other site 177439007065 flexible hinge region; other site 177439007066 PilZ domain; Region: PilZ; pfam07238 177439007067 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 177439007068 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 177439007069 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 177439007070 dimer interface [polypeptide binding]; other site 177439007071 active site 177439007072 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 177439007073 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 177439007074 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177439007075 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 177439007076 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177439007077 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 177439007078 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 177439007079 NAD(P) binding site [chemical binding]; other site 177439007080 homotetramer interface [polypeptide binding]; other site 177439007081 homodimer interface [polypeptide binding]; other site 177439007082 active site 177439007083 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 177439007084 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 177439007085 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 177439007086 TolR protein; Region: tolR; TIGR02801 177439007087 TonB C terminal; Region: TonB_2; pfam13103 177439007088 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 177439007089 TolB amino-terminal domain; Region: TolB_N; pfam04052 177439007090 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 177439007091 Protein of unknown function (DUF3251); Region: DUF3251; cl08186 177439007092 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 177439007093 binding surface 177439007094 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 177439007095 TPR motif; other site 177439007096 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 177439007097 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 177439007098 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 177439007099 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 177439007100 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 177439007101 active site 177439007102 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 177439007103 endonuclease III; Region: ENDO3c; smart00478 177439007104 minor groove reading motif; other site 177439007105 helix-hairpin-helix signature motif; other site 177439007106 substrate binding pocket [chemical binding]; other site 177439007107 active site 177439007108 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 177439007109 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 177439007110 active site 177439007111 putative catalytic site [active] 177439007112 phosphate binding site A [ion binding]; other site 177439007113 DNA binding site [nucleotide binding] 177439007114 metal binding site A [ion binding]; metal-binding site 177439007115 putative AP binding site [nucleotide binding]; other site 177439007116 putative metal binding site B [ion binding]; other site 177439007117 phosphate binding site B [ion binding]; other site 177439007118 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 177439007119 Transglycosylase; Region: Transgly; pfam00912 177439007120 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 177439007121 Protein phosphatase 2C; Region: PP2C; pfam00481 177439007122 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 177439007123 active site 177439007124 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 177439007125 Catalytic domain of Protein Kinases; Region: PKc; cd00180 177439007126 active site 177439007127 ATP binding site [chemical binding]; other site 177439007128 substrate binding site [chemical binding]; other site 177439007129 activation loop (A-loop); other site 177439007130 Double zinc ribbon; Region: DZR; pfam12773 177439007131 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 177439007132 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 177439007133 SPFH domain / Band 7 family; Region: Band_7; pfam01145 177439007134 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 177439007135 Uncharacterized conserved protein [Function unknown]; Region: COG1262 177439007136 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 177439007137 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 177439007138 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 177439007139 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 177439007140 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 177439007141 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 177439007142 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 177439007143 phosphopeptide binding site; other site 177439007144 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 177439007145 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 177439007146 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 177439007147 Integrase core domain; Region: rve; pfam00665 177439007148 Integrase core domain; Region: rve_3; pfam13683 177439007149 VIT family; Region: VIT1; pfam01988 177439007150 Uncharacterized ArCR, COG1888; Region: DUF211; pfam02680 177439007151 Protein of unknown function (DUF2806); Region: DUF2806; pfam10987 177439007152 Caspase domain; Region: Peptidase_C14; pfam00656 177439007153 dimer interface [polypeptide binding]; other site 177439007154 substrate pocket [chemical binding]; other site 177439007155 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cd00020 177439007156 HEAT repeats; Region: HEAT_2; pfam13646 177439007157 protein binding surface [polypeptide binding]; other site 177439007158 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 177439007159 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 177439007160 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 177439007161 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 177439007162 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 177439007163 beta-galactosidase; Region: BGL; TIGR03356 177439007164 metallophosphoesterase, PPA1498 family; Region: P_acnes_RR; cl17623 177439007165 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177439007166 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 177439007167 Domain of unknown function (DUF377); Region: DUF377; pfam04041 177439007168 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 177439007169 active site 177439007170 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177439007171 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 177439007172 putative ADP-binding pocket [chemical binding]; other site 177439007173 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 177439007174 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 177439007175 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 177439007176 putative active site; other site 177439007177 catalytic residue [active] 177439007178 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 177439007179 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 177439007180 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 177439007181 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 177439007182 active site 177439007183 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 177439007184 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 177439007185 minor groove reading motif; other site 177439007186 helix-hairpin-helix signature motif; other site 177439007187 substrate binding pocket [chemical binding]; other site 177439007188 active site 177439007189 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 177439007190 DNA binding and oxoG recognition site [nucleotide binding] 177439007191 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 177439007192 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 177439007193 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 177439007194 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 177439007195 active site 177439007196 NAD binding site [chemical binding]; other site 177439007197 metal binding site [ion binding]; metal-binding site 177439007198 hypothetical protein; Provisional; Region: PRK05421 177439007199 putative phosphate binding site [ion binding]; other site 177439007200 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 177439007201 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 177439007202 motif II; other site 177439007203 Autotransporter beta-domain; Region: Autotransporter; smart00869 177439007204 Autotransporter beta-domain; Region: Autotransporter; smart00869 177439007205 Autotransporter beta-domain; Region: Autotransporter; smart00869 177439007206 BPG-independent PGAM N-terminus (iPGM_N); Region: iPGM_N; cl17463 177439007207 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 177439007208 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 177439007209 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 177439007210 dimer interface [polypeptide binding]; other site 177439007211 putative functional site; other site 177439007212 putative MPT binding site; other site 177439007213 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 177439007214 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 177439007215 dimer interface [polypeptide binding]; other site 177439007216 putative functional site; other site 177439007217 putative MPT binding site; other site 177439007218 PBP superfamily domain; Region: PBP_like; pfam12727 177439007219 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 177439007220 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 177439007221 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 177439007222 ThiS family; Region: ThiS; pfam02597 177439007223 charged pocket; other site 177439007224 hydrophobic patch; other site 177439007225 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 177439007226 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 177439007227 GIY-YIG motif/motif A; other site 177439007228 active site 177439007229 catalytic site [active] 177439007230 putative DNA binding site [nucleotide binding]; other site 177439007231 metal binding site [ion binding]; metal-binding site 177439007232 UvrB/uvrC motif; Region: UVR; pfam02151 177439007233 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 177439007234 PilZ domain; Region: PilZ; pfam07238 177439007235 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 177439007236 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 177439007237 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 177439007238 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 177439007239 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 177439007240 Walker A/P-loop; other site 177439007241 ATP binding site [chemical binding]; other site 177439007242 Q-loop/lid; other site 177439007243 ABC transporter signature motif; other site 177439007244 Walker B; other site 177439007245 D-loop; other site 177439007246 H-loop/switch region; other site 177439007247 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 177439007248 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 177439007249 Walker A/P-loop; other site 177439007250 ATP binding site [chemical binding]; other site 177439007251 Q-loop/lid; other site 177439007252 ABC transporter signature motif; other site 177439007253 Walker B; other site 177439007254 D-loop; other site 177439007255 H-loop/switch region; other site 177439007256 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 177439007257 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 177439007258 TM-ABC transporter signature motif; other site 177439007259 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177439007260 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 177439007261 TM-ABC transporter signature motif; other site 177439007262 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 177439007263 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 177439007264 dimerization interface [polypeptide binding]; other site 177439007265 ligand binding site [chemical binding]; other site 177439007266 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 177439007267 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 177439007268 Glutamate binding site [chemical binding]; other site 177439007269 NAD binding site [chemical binding]; other site 177439007270 catalytic residues [active] 177439007271 Proline dehydrogenase; Region: Pro_dh; cl03282 177439007272 Predicted integral membrane protein [Function unknown]; Region: COG5616 177439007273 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 177439007274 classical (c) SDRs; Region: SDR_c; cd05233 177439007275 NAD(P) binding site [chemical binding]; other site 177439007276 active site 177439007277 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177439007278 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 177439007279 ligand binding site [chemical binding]; other site 177439007280 flexible hinge region; other site 177439007281 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 177439007282 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 177439007283 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 177439007284 shikimate kinase; Reviewed; Region: aroK; PRK00131 177439007285 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 177439007286 ADP binding site [chemical binding]; other site 177439007287 magnesium binding site [ion binding]; other site 177439007288 putative shikimate binding site; other site 177439007289 hypothetical protein; Provisional; Region: PRK10410 177439007290 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 177439007291 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 177439007292 putative NAD(P) binding site [chemical binding]; other site 177439007293 putative active site [active] 177439007294 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 177439007295 ATP binding site [chemical binding]; other site 177439007296 active site 177439007297 substrate binding site [chemical binding]; other site 177439007298 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 177439007299 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 177439007300 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 177439007301 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 177439007302 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 177439007303 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 177439007304 DNA binding residues [nucleotide binding] 177439007305 Nickel-containing superoxide dismutase; Region: Sod_Ni; pfam09055 177439007306 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 177439007307 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 177439007308 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 177439007309 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 177439007310 homodimer interface [polypeptide binding]; other site 177439007311 substrate-cofactor binding pocket; other site 177439007312 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439007313 catalytic residue [active] 177439007314 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 177439007315 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 177439007316 putative active site [active] 177439007317 putative NTP binding site [chemical binding]; other site 177439007318 putative nucleic acid binding site [nucleotide binding]; other site 177439007319 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 177439007320 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 177439007321 Putative transcription activator [Transcription]; Region: TenA; COG0819 177439007322 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 177439007323 active site residue [active] 177439007324 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177439007325 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 177439007326 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 177439007327 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 177439007328 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 177439007329 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 177439007330 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 177439007331 PAS domain S-box; Region: sensory_box; TIGR00229 177439007332 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 177439007333 putative active site [active] 177439007334 heme pocket [chemical binding]; other site 177439007335 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 177439007336 metal binding triad; other site 177439007337 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 177439007338 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 177439007339 hypothetical protein; Provisional; Region: PRK10659 177439007340 CHASE domain; Region: CHASE; pfam03924 177439007341 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439007342 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439007343 metal binding site [ion binding]; metal-binding site 177439007344 active site 177439007345 I-site; other site 177439007346 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 177439007347 active site 177439007348 8-oxo-dGMP binding site [chemical binding]; other site 177439007349 nudix motif; other site 177439007350 metal binding site [ion binding]; metal-binding site 177439007351 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 177439007352 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 177439007353 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 177439007354 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 177439007355 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177439007356 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439007357 Walker A/P-loop; other site 177439007358 ATP binding site [chemical binding]; other site 177439007359 Q-loop/lid; other site 177439007360 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177439007361 ABC transporter signature motif; other site 177439007362 Walker B; other site 177439007363 ABC transporter; Region: ABC_tran_2; pfam12848 177439007364 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177439007365 ABC transporter; Region: ABC_tran_2; pfam12848 177439007366 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 177439007367 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439007368 Walker A/P-loop; other site 177439007369 ATP binding site [chemical binding]; other site 177439007370 Q-loop/lid; other site 177439007371 ABC transporter signature motif; other site 177439007372 Walker B; other site 177439007373 D-loop; other site 177439007374 H-loop/switch region; other site 177439007375 ABC transporter; Region: ABC_tran_2; pfam12848 177439007376 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177439007377 quinolinate synthetase; Provisional; Region: PRK09375 177439007378 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 177439007379 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177439007380 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 177439007381 Flagellin N-methylase; Region: FliB; cl00497 177439007382 PEP synthetase regulatory protein; Provisional; Region: PRK05339 177439007383 hypothetical protein; Provisional; Region: PRK04233 177439007384 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 177439007385 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 177439007386 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 177439007387 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 177439007388 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 177439007389 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 177439007390 FAD binding domain; Region: FAD_binding_4; pfam01565 177439007391 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 177439007392 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 177439007393 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 177439007394 dimerization interface [polypeptide binding]; other site 177439007395 putative ATP binding site [chemical binding]; other site 177439007396 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 177439007397 Found in ATP-dependent protease La (LON); Region: LON; smart00464 177439007398 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 177439007399 Walker A motif; other site 177439007400 ATP binding site [chemical binding]; other site 177439007401 Walker B motif; other site 177439007402 arginine finger; other site 177439007403 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 177439007404 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 177439007405 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 177439007406 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 177439007407 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 177439007408 Walker A motif; other site 177439007409 ATP binding site [chemical binding]; other site 177439007410 Walker B motif; other site 177439007411 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 177439007412 Clp protease; Region: CLP_protease; pfam00574 177439007413 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 177439007414 oligomer interface [polypeptide binding]; other site 177439007415 active site residues [active] 177439007416 trigger factor; Region: tig; TIGR00115 177439007417 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 177439007418 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 177439007419 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 177439007420 MgtE intracellular N domain; Region: MgtE_N; pfam03448 177439007421 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 177439007422 Divalent cation transporter; Region: MgtE; pfam01769 177439007423 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 177439007424 TPR motif; other site 177439007425 binding surface 177439007426 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 177439007427 binding surface 177439007428 TPR repeat; Region: TPR_11; pfam13414 177439007429 TPR motif; other site 177439007430 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 177439007431 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 177439007432 S-adenosylmethionine binding site [chemical binding]; other site 177439007433 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 177439007434 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 177439007435 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 177439007436 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 177439007437 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 177439007438 S-adenosylmethionine binding site [chemical binding]; other site 177439007439 Protein of unknown function (DUF452); Region: DUF452; cl01062 177439007440 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 177439007441 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 177439007442 substrate-cofactor binding pocket; other site 177439007443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439007444 catalytic residue [active] 177439007445 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 177439007446 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 177439007447 inhibitor-cofactor binding pocket; inhibition site 177439007448 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439007449 catalytic residue [active] 177439007450 biotin synthase; Region: bioB; TIGR00433 177439007451 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 177439007452 FeS/SAM binding site; other site 177439007453 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 177439007454 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 177439007455 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 177439007456 lipoprotein signal peptidase; Provisional; Region: PRK14787 177439007457 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 177439007458 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 177439007459 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 177439007460 active site 177439007461 HIGH motif; other site 177439007462 nucleotide binding site [chemical binding]; other site 177439007463 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 177439007464 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 177439007465 active site 177439007466 KMSKS motif; other site 177439007467 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 177439007468 tRNA binding surface [nucleotide binding]; other site 177439007469 anticodon binding site; other site 177439007470 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 177439007471 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 177439007472 ATP-binding cassette domain of the cell division transporter; Region: ABC_FtsE_transporter; cd03292 177439007473 Walker A/P-loop; other site 177439007474 ATP binding site [chemical binding]; other site 177439007475 Q-loop/lid; other site 177439007476 ABC transporter signature motif; other site 177439007477 Walker B; other site 177439007478 D-loop; other site 177439007479 H-loop/switch region; other site 177439007480 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 177439007481 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 177439007482 FtsX-like permease family; Region: FtsX; pfam02687 177439007483 AmiB activator; Provisional; Region: PRK11637 177439007484 Peptidase family M23; Region: Peptidase_M23; pfam01551 177439007485 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 177439007486 C-terminal peptidase (prc); Region: prc; TIGR00225 177439007487 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 177439007488 protein binding site [polypeptide binding]; other site 177439007489 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 177439007490 Catalytic dyad [active] 177439007491 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 177439007492 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 177439007493 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 177439007494 phosphopeptide binding site; other site 177439007495 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 177439007496 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 177439007497 phosphopeptide binding site; other site 177439007498 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 177439007499 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 177439007500 phosphopeptide binding site; other site 177439007501 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 177439007502 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 177439007503 active site 177439007504 ATP binding site [chemical binding]; other site 177439007505 substrate binding site [chemical binding]; other site 177439007506 activation loop (A-loop); other site 177439007507 PEGA domain; Region: PEGA; pfam08308 177439007508 PEGA domain; Region: PEGA; pfam08308 177439007509 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 177439007510 Protein phosphatase 2C; Region: PP2C; pfam00481 177439007511 active site 177439007512 photolyase PhrII; Region: phr2; TIGR00591 177439007513 DNA photolyase; Region: DNA_photolyase; pfam00875 177439007514 Protein of unknown function (DUF523); Region: DUF523; pfam04463 177439007515 Uncharacterized conserved protein [Function unknown]; Region: COG3272 177439007516 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 177439007517 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 177439007518 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 177439007519 putative NAD(P) binding site [chemical binding]; other site 177439007520 putative active site [active] 177439007521 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 177439007522 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 177439007523 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 177439007524 dimer interface [polypeptide binding]; other site 177439007525 ssDNA binding site [nucleotide binding]; other site 177439007526 tetramer (dimer of dimers) interface [polypeptide binding]; other site 177439007527 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 177439007528 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 177439007529 active site 177439007530 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 177439007531 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 177439007532 homodimer interface [polypeptide binding]; other site 177439007533 oligonucleotide binding site [chemical binding]; other site 177439007534 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 177439007535 Peptidase family M23; Region: Peptidase_M23; pfam01551 177439007536 Predicted permeases [General function prediction only]; Region: COG0795 177439007537 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 177439007538 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 177439007539 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 177439007540 putative substrate binding site [chemical binding]; other site 177439007541 putative ATP binding site [chemical binding]; other site 177439007542 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 177439007543 ligand binding site [chemical binding]; other site 177439007544 active site 177439007545 UGI interface [polypeptide binding]; other site 177439007546 catalytic site [active] 177439007547 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 177439007548 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 177439007549 active site 177439007550 phosphorylation site [posttranslational modification] 177439007551 intermolecular recognition site; other site 177439007552 CheB methylesterase; Region: CheB_methylest; pfam01339 177439007553 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 177439007554 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 177439007555 active site 177439007556 (T/H)XGH motif; other site 177439007557 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 177439007558 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 177439007559 putative catalytic cysteine [active] 177439007560 gamma-glutamyl kinase; Provisional; Region: PRK05429 177439007561 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 177439007562 nucleotide binding site [chemical binding]; other site 177439007563 homotetrameric interface [polypeptide binding]; other site 177439007564 putative phosphate binding site [ion binding]; other site 177439007565 putative allosteric binding site; other site 177439007566 PUA domain; Region: PUA; pfam01472 177439007567 GTPase CgtA; Reviewed; Region: obgE; PRK12299 177439007568 GTP1/OBG; Region: GTP1_OBG; pfam01018 177439007569 Obg GTPase; Region: Obg; cd01898 177439007570 G1 box; other site 177439007571 GTP/Mg2+ binding site [chemical binding]; other site 177439007572 Switch I region; other site 177439007573 G2 box; other site 177439007574 G3 box; other site 177439007575 Switch II region; other site 177439007576 G4 box; other site 177439007577 G5 box; other site 177439007578 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 177439007579 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 177439007580 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 177439007581 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 177439007582 homodimer interface [polypeptide binding]; other site 177439007583 metal binding site [ion binding]; metal-binding site 177439007584 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 177439007585 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 177439007586 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 177439007587 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 177439007588 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 177439007589 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 177439007590 replicative DNA helicase; Region: DnaB; TIGR00665 177439007591 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 177439007592 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 177439007593 Walker A motif; other site 177439007594 ATP binding site [chemical binding]; other site 177439007595 Walker B motif; other site 177439007596 DNA binding loops [nucleotide binding] 177439007597 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 177439007598 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 177439007599 HIGH motif; other site 177439007600 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 177439007601 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 177439007602 active site 177439007603 KMSKS motif; other site 177439007604 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 177439007605 tRNA binding surface [nucleotide binding]; other site 177439007606 Lipopolysaccharide-assembly; Region: LptE; pfam04390 177439007607 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 177439007608 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 177439007609 FMN binding site [chemical binding]; other site 177439007610 active site 177439007611 catalytic residues [active] 177439007612 substrate binding site [chemical binding]; other site 177439007613 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177439007614 Coenzyme A binding pocket [chemical binding]; other site 177439007615 multifunctional aminopeptidase A; Provisional; Region: PRK00913 177439007616 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 177439007617 interface (dimer of trimers) [polypeptide binding]; other site 177439007618 Substrate-binding/catalytic site; other site 177439007619 Zn-binding sites [ion binding]; other site 177439007620 Domain of unknown function DUF21; Region: DUF21; pfam01595 177439007621 FOG: CBS domain [General function prediction only]; Region: COG0517 177439007622 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 177439007623 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 177439007624 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 177439007625 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 177439007626 trimer interface [polypeptide binding]; other site 177439007627 active site 177439007628 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 177439007629 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 177439007630 RNase E interface [polypeptide binding]; other site 177439007631 trimer interface [polypeptide binding]; other site 177439007632 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 177439007633 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 177439007634 RNase E interface [polypeptide binding]; other site 177439007635 trimer interface [polypeptide binding]; other site 177439007636 active site 177439007637 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 177439007638 putative nucleic acid binding region [nucleotide binding]; other site 177439007639 G-X-X-G motif; other site 177439007640 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 177439007641 RNA binding site [nucleotide binding]; other site 177439007642 domain interface; other site 177439007643 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 177439007644 16S/18S rRNA binding site [nucleotide binding]; other site 177439007645 S13e-L30e interaction site [polypeptide binding]; other site 177439007646 25S rRNA binding site [nucleotide binding]; other site 177439007647 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 177439007648 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 177439007649 RNA binding site [nucleotide binding]; other site 177439007650 active site 177439007651 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 177439007652 DHH family; Region: DHH; pfam01368 177439007653 DHHA1 domain; Region: DHHA1; pfam02272 177439007654 Ribosome-binding factor A; Region: RBFA; pfam02033 177439007655 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 177439007656 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 177439007657 translation initiation factor IF-2; Region: IF-2; TIGR00487 177439007658 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 177439007659 G1 box; other site 177439007660 putative GEF interaction site [polypeptide binding]; other site 177439007661 GTP/Mg2+ binding site [chemical binding]; other site 177439007662 Switch I region; other site 177439007663 G2 box; other site 177439007664 G3 box; other site 177439007665 Switch II region; other site 177439007666 G4 box; other site 177439007667 G5 box; other site 177439007668 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 177439007669 Translation-initiation factor 2; Region: IF-2; pfam11987 177439007670 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 177439007671 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 177439007672 NusA N-terminal domain; Region: NusA_N; pfam08529 177439007673 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 177439007674 RNA binding site [nucleotide binding]; other site 177439007675 homodimer interface [polypeptide binding]; other site 177439007676 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 177439007677 G-X-X-G motif; other site 177439007678 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 177439007679 G-X-X-G motif; other site 177439007680 ribosome maturation protein RimP; Reviewed; Region: PRK00092 177439007681 hypothetical protein; Provisional; Region: PRK14641 177439007682 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 177439007683 putative oligomer interface [polypeptide binding]; other site 177439007684 putative RNA binding site [nucleotide binding]; other site 177439007685 DNA topoisomerase III; Validated; Region: PRK08173 177439007686 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 177439007687 active site 177439007688 putative interdomain interaction site [polypeptide binding]; other site 177439007689 putative metal-binding site [ion binding]; other site 177439007690 putative nucleotide binding site [chemical binding]; other site 177439007691 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 177439007692 domain I; other site 177439007693 DNA binding groove [nucleotide binding] 177439007694 phosphate binding site [ion binding]; other site 177439007695 domain II; other site 177439007696 domain III; other site 177439007697 nucleotide binding site [chemical binding]; other site 177439007698 catalytic site [active] 177439007699 domain IV; other site 177439007700 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 177439007701 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 177439007702 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 177439007703 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 177439007704 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 177439007705 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439007706 catalytic residue [active] 177439007707 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 177439007708 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 177439007709 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 177439007710 putative active site [active] 177439007711 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 177439007712 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177439007713 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 177439007714 phosphate binding site [ion binding]; other site 177439007715 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; cl00239 177439007716 domain_subunit interface; other site 177439007717 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 177439007718 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 177439007719 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177439007720 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 177439007721 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439007722 Walker A/P-loop; other site 177439007723 ATP binding site [chemical binding]; other site 177439007724 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 177439007725 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 177439007726 active site 177439007727 metal binding site [ion binding]; metal-binding site 177439007728 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 177439007729 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 177439007730 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 177439007731 Peptidase family M48; Region: Peptidase_M48; cl12018 177439007732 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 177439007733 binding surface 177439007734 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177439007735 TPR motif; other site 177439007736 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177439007737 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177439007738 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 177439007739 NAD(P) binding site [chemical binding]; other site 177439007740 active site 177439007741 peptide synthase; Provisional; Region: PRK09274 177439007742 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 177439007743 acyl-activating enzyme (AAE) consensus motif; other site 177439007744 putative AMP binding site [chemical binding]; other site 177439007745 putative active site [active] 177439007746 putative CoA binding site [chemical binding]; other site 177439007747 haloalkane dehalogenase; Provisional; Region: PRK03204 177439007748 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 177439007749 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 177439007750 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 177439007751 Walker A/P-loop; other site 177439007752 ATP binding site [chemical binding]; other site 177439007753 Q-loop/lid; other site 177439007754 ABC transporter signature motif; other site 177439007755 Walker B; other site 177439007756 D-loop; other site 177439007757 H-loop/switch region; other site 177439007758 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 177439007759 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 177439007760 putative active site [active] 177439007761 heme pocket [chemical binding]; other site 177439007762 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 177439007763 dimer interface [polypeptide binding]; other site 177439007764 phosphorylation site [posttranslational modification] 177439007765 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 177439007766 ATP binding site [chemical binding]; other site 177439007767 Mg2+ binding site [ion binding]; other site 177439007768 G-X-G motif; other site 177439007769 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 177439007770 G1 box; other site 177439007771 GTP/Mg2+ binding site [chemical binding]; other site 177439007772 Switch I region; other site 177439007773 G2 box; other site 177439007774 G3 box; other site 177439007775 Switch II region; other site 177439007776 G4 box; other site 177439007777 G5 box; other site 177439007778 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 177439007779 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 177439007780 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 177439007781 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 177439007782 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 177439007783 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 177439007784 chemotaxis protein CheA; Provisional; Region: PRK10547 177439007785 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 177439007786 putative binding surface; other site 177439007787 active site 177439007788 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 177439007789 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 177439007790 ATP binding site [chemical binding]; other site 177439007791 Mg2+ binding site [ion binding]; other site 177439007792 G-X-G motif; other site 177439007793 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 177439007794 CheW-like domain; Region: CheW; pfam01584 177439007795 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177439007796 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 177439007797 active site 177439007798 phosphorylation site [posttranslational modification] 177439007799 intermolecular recognition site; other site 177439007800 dimerization interface [polypeptide binding]; other site 177439007801 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 177439007802 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 177439007803 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 177439007804 active site 177439007805 phosphorylation site [posttranslational modification] 177439007806 intermolecular recognition site; other site 177439007807 dimerization interface [polypeptide binding]; other site 177439007808 CheB methylesterase; Region: CheB_methylest; pfam01339 177439007809 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 177439007810 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 177439007811 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 177439007812 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 177439007813 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 177439007814 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 177439007815 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 177439007816 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 177439007817 Staphylococcal nuclease homologues; Region: SNc; smart00318 177439007818 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 177439007819 Catalytic site; other site 177439007820 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177439007821 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 177439007822 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 177439007823 Walker A motif; other site 177439007824 ATP binding site [chemical binding]; other site 177439007825 Walker B motif; other site 177439007826 arginine finger; other site 177439007827 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177439007828 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 177439007829 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 177439007830 Response regulator receiver domain; Region: Response_reg; pfam00072 177439007831 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 177439007832 active site 177439007833 phosphorylation site [posttranslational modification] 177439007834 intermolecular recognition site; other site 177439007835 dimerization interface [polypeptide binding]; other site 177439007836 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 177439007837 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 177439007838 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 177439007839 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 177439007840 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 177439007841 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 177439007842 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 177439007843 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 177439007844 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 177439007845 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 177439007846 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 177439007847 FliG C-terminal domain; Region: FliG_C; pfam01706 177439007848 Flagellar assembly protein FliH; Region: FliH; pfam02108 177439007849 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 177439007850 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 177439007851 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 177439007852 Walker A motif/ATP binding site; other site 177439007853 Walker B motif; other site 177439007854 Flagellar FliJ protein; Region: FliJ; pfam02050 177439007855 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 177439007856 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 177439007857 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 177439007858 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 177439007859 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 177439007860 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 177439007861 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 177439007862 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 177439007863 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 177439007864 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 177439007865 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 177439007866 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 177439007867 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 177439007868 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177439007869 ligand binding site [chemical binding]; other site 177439007870 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 177439007871 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 177439007872 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 177439007873 flagellar motor switch protein FliN; Region: fliN; TIGR02480 177439007874 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 177439007875 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 177439007876 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 177439007877 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 177439007878 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 177439007879 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 177439007880 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 177439007881 FHIPEP family; Region: FHIPEP; pfam00771 177439007882 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 177439007883 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 177439007884 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 177439007885 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 177439007886 P-loop; other site 177439007887 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 177439007888 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 177439007889 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 177439007890 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 177439007891 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 177439007892 DNA binding residues [nucleotide binding] 177439007893 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 177439007894 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 177439007895 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 177439007896 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 177439007897 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 177439007898 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK12786 177439007899 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 177439007900 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 177439007901 Flagellar L-ring protein; Region: FlgH; pfam02107 177439007902 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 177439007903 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 177439007904 Rod binding protein; Region: Rod-binding; pfam10135 177439007905 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 177439007906 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 177439007907 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 177439007908 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 177439007909 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 177439007910 Global regulator protein family; Region: CsrA; pfam02599 177439007911 flagellar assembly protein FliW; Provisional; Region: PRK13285 177439007912 flagellin; Reviewed; Region: PRK08869 177439007913 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 177439007914 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 177439007915 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 177439007916 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 177439007917 Walker A motif; other site 177439007918 ATP binding site [chemical binding]; other site 177439007919 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 177439007920 Walker B motif; other site 177439007921 arginine finger; other site 177439007922 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 177439007923 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 177439007924 active site 177439007925 HslU subunit interaction site [polypeptide binding]; other site 177439007926 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 177439007927 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 177439007928 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 177439007929 substrate binding pocket [chemical binding]; other site 177439007930 chain length determination region; other site 177439007931 substrate-Mg2+ binding site; other site 177439007932 catalytic residues [active] 177439007933 aspartate-rich region 1; other site 177439007934 active site lid residues [active] 177439007935 aspartate-rich region 2; other site 177439007936 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 177439007937 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 177439007938 TPP-binding site; other site 177439007939 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 177439007940 PYR/PP interface [polypeptide binding]; other site 177439007941 dimer interface [polypeptide binding]; other site 177439007942 TPP binding site [chemical binding]; other site 177439007943 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 177439007944 PAS fold; Region: PAS_4; pfam08448 177439007945 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 177439007946 putative active site [active] 177439007947 heme pocket [chemical binding]; other site 177439007948 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439007949 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439007950 metal binding site [ion binding]; metal-binding site 177439007951 active site 177439007952 I-site; other site 177439007953 outer membrane protease; Reviewed; Region: PRK10993 177439007954 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 177439007955 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 177439007956 NADP binding site [chemical binding]; other site 177439007957 dimer interface [polypeptide binding]; other site 177439007958 Cache domain; Region: Cache_1; pfam02743 177439007959 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 177439007960 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 177439007961 dimerization interface [polypeptide binding]; other site 177439007962 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439007963 dimer interface [polypeptide binding]; other site 177439007964 putative CheW interface [polypeptide binding]; other site 177439007965 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 177439007966 dimer interface [polypeptide binding]; other site 177439007967 FMN binding site [chemical binding]; other site 177439007968 Cupin domain; Region: Cupin_2; cl17218 177439007969 Predicted transcriptional regulators [Transcription]; Region: COG1733 177439007970 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 177439007971 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 177439007972 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 177439007973 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177439007974 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177439007975 PAS domain S-box; Region: sensory_box; TIGR00229 177439007976 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 177439007977 putative active site [active] 177439007978 heme pocket [chemical binding]; other site 177439007979 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439007980 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439007981 metal binding site [ion binding]; metal-binding site 177439007982 active site 177439007983 I-site; other site 177439007984 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 177439007985 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 177439007986 putative NAD(P) binding site [chemical binding]; other site 177439007987 active site 177439007988 putative substrate binding site [chemical binding]; other site 177439007989 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 177439007990 intersubunit interface [polypeptide binding]; other site 177439007991 active site 177439007992 zinc binding site [ion binding]; other site 177439007993 Na+ binding site [ion binding]; other site 177439007994 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 177439007995 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 177439007996 GIY-YIG motif/motif A; other site 177439007997 putative active site [active] 177439007998 putative metal binding site [ion binding]; other site 177439007999 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177439008000 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 177439008001 active site 177439008002 phosphorylation site [posttranslational modification] 177439008003 intermolecular recognition site; other site 177439008004 dimerization interface [polypeptide binding]; other site 177439008005 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 177439008006 Walker A motif; other site 177439008007 ATP binding site [chemical binding]; other site 177439008008 Walker B motif; other site 177439008009 arginine finger; other site 177439008010 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177439008011 PAS domain; Region: PAS; smart00091 177439008012 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177439008013 putative active site [active] 177439008014 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 177439008015 dimer interface [polypeptide binding]; other site 177439008016 phosphorylation site [posttranslational modification] 177439008017 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 177439008018 ATP binding site [chemical binding]; other site 177439008019 Mg2+ binding site [ion binding]; other site 177439008020 G-X-G motif; other site 177439008021 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 177439008022 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 177439008023 hinge; other site 177439008024 active site 177439008025 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 177439008026 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 177439008027 S-adenosylmethionine binding site [chemical binding]; other site 177439008028 peptide chain release factor 1; Validated; Region: prfA; PRK00591 177439008029 This domain is found in peptide chain release factors; Region: PCRF; smart00937 177439008030 RF-1 domain; Region: RF-1; pfam00472 177439008031 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 177439008032 transcription termination factor Rho; Provisional; Region: rho; PRK09376 177439008033 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 177439008034 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 177439008035 RNA binding site [nucleotide binding]; other site 177439008036 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 177439008037 multimer interface [polypeptide binding]; other site 177439008038 Walker A motif; other site 177439008039 ATP binding site [chemical binding]; other site 177439008040 Walker B motif; other site 177439008041 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 177439008042 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 177439008043 CoA-binding site [chemical binding]; other site 177439008044 ATP-binding [chemical binding]; other site 177439008045 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 177439008046 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 177439008047 RNA binding surface [nucleotide binding]; other site 177439008048 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 177439008049 active site 177439008050 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 177439008051 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 177439008052 putative active site [active] 177439008053 catalytic residue [active] 177439008054 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 177439008055 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 177439008056 5S rRNA interface [nucleotide binding]; other site 177439008057 CTC domain interface [polypeptide binding]; other site 177439008058 L16 interface [polypeptide binding]; other site 177439008059 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 177439008060 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 177439008061 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177439008062 active site 177439008063 4-diphosphocytidyl-2C-methyl-D-erythritol kinase; Region: ispE; TIGR00154 177439008064 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 177439008065 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 177439008066 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 177439008067 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 177439008068 active site 177439008069 HIGH motif; other site 177439008070 nucleotide binding site [chemical binding]; other site 177439008071 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 177439008072 active site 177439008073 KMSKS motif; other site 177439008074 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 177439008075 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 177439008076 active site 177439008077 HIGH motif; other site 177439008078 nucleotide binding site [chemical binding]; other site 177439008079 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 177439008080 KMSKS motif; other site 177439008081 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 177439008082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 177439008083 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 177439008084 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 177439008085 catalytic core [active] 177439008086 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 177439008087 heterotetramer interface [polypeptide binding]; other site 177439008088 active site pocket [active] 177439008089 cleavage site 177439008090 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 177439008091 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 177439008092 putative active site [active] 177439008093 catalytic site [active] 177439008094 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 177439008095 putative active site [active] 177439008096 catalytic site [active] 177439008097 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 177439008098 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 177439008099 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 177439008100 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 177439008101 FeS/SAM binding site; other site 177439008102 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 177439008103 Predicted membrane protein [Function unknown]; Region: COG2860 177439008104 UPF0126 domain; Region: UPF0126; pfam03458 177439008105 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 177439008106 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 177439008107 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 177439008108 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177439008109 putative substrate translocation pore; other site 177439008110 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 177439008111 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 177439008112 CoenzymeA binding site [chemical binding]; other site 177439008113 subunit interaction site [polypeptide binding]; other site 177439008114 PHB binding site; other site 177439008115 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 177439008116 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 177439008117 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 177439008118 nucleotide binding region [chemical binding]; other site 177439008119 ATP-binding site [chemical binding]; other site 177439008120 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177439008121 Coenzyme A binding pocket [chemical binding]; other site 177439008122 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 177439008123 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 177439008124 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 177439008125 active site 177439008126 HIGH motif; other site 177439008127 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 177439008128 KMSK motif region; other site 177439008129 tRNA binding surface [nucleotide binding]; other site 177439008130 DALR anticodon binding domain; Region: DALR_1; smart00836 177439008131 anticodon binding site; other site 177439008132 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 177439008133 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 177439008134 active site 177439008135 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 177439008136 dimer interface [polypeptide binding]; other site 177439008137 substrate binding site [chemical binding]; other site 177439008138 catalytic residues [active] 177439008139 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177439008140 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 177439008141 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 177439008142 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 177439008143 active site 177439008144 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 177439008145 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 177439008146 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 177439008147 Methyltransferase domain; Region: Methyltransf_23; pfam13489 177439008148 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 177439008149 S-adenosylmethionine binding site [chemical binding]; other site 177439008150 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 177439008151 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 177439008152 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 177439008153 catalytic triad [active] 177439008154 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 177439008155 putative acyl-acceptor binding pocket; other site 177439008156 excinuclease ABC subunit B; Provisional; Region: PRK05298 177439008157 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 177439008158 ATP binding site [chemical binding]; other site 177439008159 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 177439008160 nucleotide binding region [chemical binding]; other site 177439008161 ATP-binding site [chemical binding]; other site 177439008162 Ultra-violet resistance protein B; Region: UvrB; pfam12344 177439008163 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 177439008164 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 177439008165 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 177439008166 2-isopropylmalate synthase; Validated; Region: PRK03739 177439008167 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 177439008168 active site 177439008169 catalytic residues [active] 177439008170 metal binding site [ion binding]; metal-binding site 177439008171 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 177439008172 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 177439008173 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 177439008174 PYR/PP interface [polypeptide binding]; other site 177439008175 dimer interface [polypeptide binding]; other site 177439008176 TPP binding site [chemical binding]; other site 177439008177 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 177439008178 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 177439008179 TPP-binding site [chemical binding]; other site 177439008180 dimer interface [polypeptide binding]; other site 177439008181 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 177439008182 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 177439008183 putative valine binding site [chemical binding]; other site 177439008184 dimer interface [polypeptide binding]; other site 177439008185 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 177439008186 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 177439008187 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 177439008188 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 177439008189 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 177439008190 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 177439008191 S-adenosylmethionine binding site [chemical binding]; other site 177439008192 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 177439008193 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 177439008194 active site 177439008195 (T/H)XGH motif; other site 177439008196 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 177439008197 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 177439008198 G1 box; other site 177439008199 GTP/Mg2+ binding site [chemical binding]; other site 177439008200 G2 box; other site 177439008201 Switch I region; other site 177439008202 G3 box; other site 177439008203 Switch II region; other site 177439008204 G4 box; other site 177439008205 G5 box; other site 177439008206 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 177439008207 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 177439008208 active site 177439008209 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 177439008210 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 177439008211 catalytic residue [active] 177439008212 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 177439008213 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 177439008214 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 177439008215 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 177439008216 IHF dimer interface [polypeptide binding]; other site 177439008217 IHF - DNA interface [nucleotide binding]; other site 177439008218 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 177439008219 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 177439008220 catalytic motif [active] 177439008221 Zn binding site [ion binding]; other site 177439008222 RibD C-terminal domain; Region: RibD_C; pfam01872 177439008223 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 177439008224 ATP cone domain; Region: ATP-cone; pfam03477 177439008225 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 177439008226 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 177439008227 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 177439008228 dimer interface [polypeptide binding]; other site 177439008229 active site 177439008230 acyl carrier protein; Provisional; Region: acpP; PRK00982 177439008231 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 177439008232 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 177439008233 NAD(P) binding site [chemical binding]; other site 177439008234 homotetramer interface [polypeptide binding]; other site 177439008235 homodimer interface [polypeptide binding]; other site 177439008236 active site 177439008237 Electron transfer flavoprotein domain; Region: ETF; pfam01012 177439008238 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 177439008239 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 177439008240 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 177439008241 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 177439008242 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 177439008243 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 177439008244 dimer interface [polypeptide binding]; other site 177439008245 active site 177439008246 CoA binding pocket [chemical binding]; other site 177439008247 putative phosphate acyltransferase; Provisional; Region: PRK05331 177439008248 Fatty acid synthesis protein; Region: FA_synthesis; cl17261 177439008249 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 177439008250 ribonuclease D; Region: rnd; TIGR01388 177439008251 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 177439008252 catalytic site [active] 177439008253 putative active site [active] 177439008254 putative substrate binding site [chemical binding]; other site 177439008255 HRDC domain; Region: HRDC; pfam00570 177439008256 signal recognition particle protein; Provisional; Region: PRK10867 177439008257 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 177439008258 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 177439008259 P loop; other site 177439008260 GTP binding site [chemical binding]; other site 177439008261 Signal peptide binding domain; Region: SRP_SPB; pfam02978 177439008262 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 177439008263 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 177439008264 KH domain; Region: KH_4; pfam13083 177439008265 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 177439008266 PRC-barrel domain; Region: PRC; pfam05239 177439008267 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 177439008268 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 177439008269 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 177439008270 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 177439008271 RNA/DNA hybrid binding site [nucleotide binding]; other site 177439008272 active site 177439008273 hypothetical protein; Reviewed; Region: PRK12497 177439008274 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 177439008275 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 177439008276 thymidylate kinase; Validated; Region: tmk; PRK00698 177439008277 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 177439008278 TMP-binding site; other site 177439008279 ATP-binding site [chemical binding]; other site 177439008280 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 177439008281 binding surface 177439008282 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177439008283 TPR motif; other site 177439008284 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177439008285 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 177439008286 binding surface 177439008287 TPR motif; other site 177439008288 TPR repeat; Region: TPR_11; pfam13414 177439008289 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 177439008290 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 177439008291 B12 binding site [chemical binding]; other site 177439008292 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 177439008293 FeS/SAM binding site; other site 177439008294 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 177439008295 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 177439008296 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 177439008297 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 177439008298 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 177439008299 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 177439008300 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177439008301 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 177439008302 putative amphipathic alpha helix; other site 177439008303 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 177439008304 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 177439008305 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 177439008306 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177439008307 putative substrate translocation pore; other site 177439008308 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 177439008309 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 177439008310 G1 box; other site 177439008311 putative GEF interaction site [polypeptide binding]; other site 177439008312 GTP/Mg2+ binding site [chemical binding]; other site 177439008313 Switch I region; other site 177439008314 G2 box; other site 177439008315 G3 box; other site 177439008316 Switch II region; other site 177439008317 G4 box; other site 177439008318 G5 box; other site 177439008319 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 177439008320 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 177439008321 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 177439008322 DNA binding residues [nucleotide binding] 177439008323 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 177439008324 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 177439008325 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 177439008326 dimerization interface [polypeptide binding]; other site 177439008327 PAS domain; Region: PAS; smart00091 177439008328 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177439008329 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 177439008330 dimer interface [polypeptide binding]; other site 177439008331 phosphorylation site [posttranslational modification] 177439008332 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 177439008333 ATP binding site [chemical binding]; other site 177439008334 Mg2+ binding site [ion binding]; other site 177439008335 G-X-G motif; other site 177439008336 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177439008337 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 177439008338 active site 177439008339 phosphorylation site [posttranslational modification] 177439008340 intermolecular recognition site; other site 177439008341 dimerization interface [polypeptide binding]; other site 177439008342 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 177439008343 Walker A motif; other site 177439008344 ATP binding site [chemical binding]; other site 177439008345 Walker B motif; other site 177439008346 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177439008347 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 177439008348 dimer interface [polypeptide binding]; other site 177439008349 active site 177439008350 Schiff base residues; other site 177439008351 Predicted integral membrane protein [Function unknown]; Region: COG5652 177439008352 SEC-C motif; Region: SEC-C; pfam02810 177439008353 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 177439008354 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 177439008355 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 177439008356 active site 177439008357 dimer interface [polypeptide binding]; other site 177439008358 effector binding site; other site 177439008359 TSCPD domain; Region: TSCPD; cl14834 177439008360 Ferredoxin [Energy production and conversion]; Region: COG1146 177439008361 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177439008362 Flagellin N-methylase; Region: FliB; pfam03692 177439008363 FOG: CBS domain [General function prediction only]; Region: COG0517 177439008364 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 177439008365 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 177439008366 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 177439008367 active site 177439008368 Zn binding site [ion binding]; other site 177439008369 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 177439008370 Transcriptional regulator [Transcription]; Region: LysR; COG0583 177439008371 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177439008372 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 177439008373 dimerization interface [polypeptide binding]; other site 177439008374 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 177439008375 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 177439008376 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177439008377 HlyD family secretion protein; Region: HlyD_3; pfam13437 177439008378 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 177439008379 Protein export membrane protein; Region: SecD_SecF; cl14618 177439008380 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 177439008381 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177439008382 putative substrate translocation pore; other site 177439008383 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 177439008384 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 177439008385 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 177439008386 glutamate dehydrogenase; Provisional; Region: PRK09414 177439008387 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 177439008388 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 177439008389 NAD(P) binding site [chemical binding]; other site 177439008390 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 177439008391 intermolecular recognition site; other site 177439008392 active site 177439008393 dimerization interface [polypeptide binding]; other site 177439008394 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 177439008395 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 177439008396 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 177439008397 GTP binding site; other site 177439008398 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 177439008399 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 177439008400 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 177439008401 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 177439008402 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 177439008403 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 177439008404 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 177439008405 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 177439008406 RNA binding site [nucleotide binding]; other site 177439008407 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 177439008408 RNA binding site [nucleotide binding]; other site 177439008409 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 177439008410 RNA binding site [nucleotide binding]; other site 177439008411 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 177439008412 RNA binding site [nucleotide binding]; other site 177439008413 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 177439008414 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 177439008415 Autotransporter beta-domain; Region: Autotransporter; smart00869 177439008416 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 177439008417 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 177439008418 Autotransporter beta-domain; Region: Autotransporter; smart00869 177439008419 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 177439008420 Peptidase family U32; Region: Peptidase_U32; pfam01136 177439008421 Collagenase; Region: DUF3656; pfam12392 177439008422 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 177439008423 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 177439008424 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 177439008425 G1 box; other site 177439008426 GTP/Mg2+ binding site [chemical binding]; other site 177439008427 G2 box; other site 177439008428 Switch I region; other site 177439008429 G3 box; other site 177439008430 Switch II region; other site 177439008431 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 177439008432 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 177439008433 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177439008434 Coenzyme A binding pocket [chemical binding]; other site 177439008435 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 177439008436 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 177439008437 putative metal binding site [ion binding]; other site 177439008438 dimer interface [polypeptide binding]; other site 177439008439 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 177439008440 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 177439008441 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 177439008442 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 177439008443 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 177439008444 catalytic site [active] 177439008445 G-X2-G-X-G-K; other site 177439008446 hypothetical protein; Provisional; Region: PRK04323 177439008447 hypothetical protein; Provisional; Region: PRK11820 177439008448 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 177439008449 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 177439008450 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 177439008451 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177439008452 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 177439008453 ligand binding site [chemical binding]; other site 177439008454 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 177439008455 Radical SAM superfamily; Region: Radical_SAM; pfam04055 177439008456 FeS/SAM binding site; other site 177439008457 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 177439008458 metal binding site 2 [ion binding]; metal-binding site 177439008459 putative DNA binding helix; other site 177439008460 metal binding site 1 [ion binding]; metal-binding site 177439008461 dimer interface [polypeptide binding]; other site 177439008462 structural Zn2+ binding site [ion binding]; other site 177439008463 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 177439008464 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 177439008465 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 177439008466 active site 177439008467 HIGH motif; other site 177439008468 dimer interface [polypeptide binding]; other site 177439008469 KMSKS motif; other site 177439008470 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 177439008471 RNA binding surface [nucleotide binding]; other site 177439008472 ribonuclease Y; Region: RNase_Y; TIGR03319 177439008473 Phage antitermination protein Q; Region: Phage_antiter_Q; pfam06323 177439008474 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439008475 Zn2+ binding site [ion binding]; other site 177439008476 Mg2+ binding site [ion binding]; other site 177439008477 Cell division protein ZapA; Region: ZapA; cl01146 177439008478 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 177439008479 putative active site [active] 177439008480 nucleotide binding site [chemical binding]; other site 177439008481 nudix motif; other site 177439008482 putative metal binding site [ion binding]; other site 177439008483 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 177439008484 N-acetyl-D-glucosamine binding site [chemical binding]; other site 177439008485 catalytic residue [active] 177439008486 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 177439008487 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; cl00399 177439008488 MoaD interaction [polypeptide binding]; other site 177439008489 active site residues [active] 177439008490 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 177439008491 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 177439008492 active site 177439008493 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 177439008494 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177439008495 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177439008496 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 177439008497 Part of AAA domain; Region: AAA_19; pfam13245 177439008498 Family description; Region: UvrD_C_2; pfam13538 177439008499 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 177439008500 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 177439008501 TM2 domain; Region: TM2; cl00984 177439008502 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 177439008503 dimer interface [polypeptide binding]; other site 177439008504 phosphorylation site [posttranslational modification] 177439008505 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 177439008506 ATP binding site [chemical binding]; other site 177439008507 Mg2+ binding site [ion binding]; other site 177439008508 G-X-G motif; other site 177439008509 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 177439008510 active site 177439008511 phosphorylation site [posttranslational modification] 177439008512 intermolecular recognition site; other site 177439008513 dimerization interface [polypeptide binding]; other site 177439008514 Protein of unknown function (DUF493); Region: DUF493; pfam04359 177439008515 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 177439008516 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 177439008517 dimer interface [polypeptide binding]; other site 177439008518 PYR/PP interface [polypeptide binding]; other site 177439008519 TPP binding site [chemical binding]; other site 177439008520 substrate binding site [chemical binding]; other site 177439008521 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 177439008522 Domain of unknown function; Region: EKR; pfam10371 177439008523 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 177439008524 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 177439008525 TPP-binding site [chemical binding]; other site 177439008526 dimer interface [polypeptide binding]; other site 177439008527 Flagellin N-methylase; Region: FliB; pfam03692 177439008528 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 177439008529 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 177439008530 active site 177439008531 dimer interface [polypeptide binding]; other site 177439008532 HEAT repeats; Region: HEAT_2; pfam13646 177439008533 HEAT repeats; Region: HEAT_2; pfam13646 177439008534 HEAT repeats; Region: HEAT_2; pfam13646 177439008535 Response regulator receiver domain; Region: Response_reg; pfam00072 177439008536 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 177439008537 active site 177439008538 phosphorylation site [posttranslational modification] 177439008539 intermolecular recognition site; other site 177439008540 dimerization interface [polypeptide binding]; other site 177439008541 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 177439008542 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 177439008543 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 177439008544 active site residue [active] 177439008545 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 177439008546 dimer interface [polypeptide binding]; other site 177439008547 phosphorylation site [posttranslational modification] 177439008548 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 177439008549 ATP binding site [chemical binding]; other site 177439008550 Mg2+ binding site [ion binding]; other site 177439008551 G-X-G motif; other site 177439008552 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 177439008553 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 177439008554 FeS/SAM binding site; other site 177439008555 cell division protein FtsZ; Validated; Region: PRK09330 177439008556 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 177439008557 nucleotide binding site [chemical binding]; other site 177439008558 SulA interaction site; other site 177439008559 cell division protein FtsA; Region: ftsA; TIGR01174 177439008560 Cell division protein FtsA; Region: FtsA; smart00842 177439008561 Cell division protein FtsA; Region: FtsA; pfam14450 177439008562 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 177439008563 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 177439008564 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 177439008565 FAD binding domain; Region: FAD_binding_4; pfam01565 177439008566 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 177439008567 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 177439008568 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 177439008569 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177439008570 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177439008571 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 177439008572 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 177439008573 active site 177439008574 homodimer interface [polypeptide binding]; other site 177439008575 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 177439008576 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 177439008577 NAD binding site [chemical binding]; other site 177439008578 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177439008579 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177439008580 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 177439008581 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 177439008582 Mg++ binding site [ion binding]; other site 177439008583 putative catalytic motif [active] 177439008584 putative substrate binding site [chemical binding]; other site 177439008585 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional; Region: PRK11929 177439008586 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 177439008587 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177439008588 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177439008589 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 177439008590 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177439008591 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177439008592 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 177439008593 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 177439008594 MraW methylase family; Region: Methyltransf_5; cl17771 177439008595 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 177439008596 cell division protein MraZ; Reviewed; Region: PRK00326 177439008597 MraZ protein; Region: MraZ; pfam02381 177439008598 MraZ protein; Region: MraZ; pfam02381 177439008599 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 177439008600 oligomerization interface [polypeptide binding]; other site 177439008601 active site 177439008602 metal binding site [ion binding]; metal-binding site 177439008603 hypothetical protein; Validated; Region: PRK00110 177439008604 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 177439008605 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 177439008606 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 177439008607 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 177439008608 active site 177439008609 NTP binding site [chemical binding]; other site 177439008610 metal binding triad [ion binding]; metal-binding site 177439008611 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177439008612 Zn2+ binding site [ion binding]; other site 177439008613 Mg2+ binding site [ion binding]; other site 177439008614 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 177439008615 tRNA dihydrouridine synthase A; Region: yjbN; TIGR00742 177439008616 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 177439008617 FMN binding site [chemical binding]; other site 177439008618 active site 177439008619 catalytic residues [active] 177439008620 substrate binding site [chemical binding]; other site 177439008621 hypothetical protein; Provisional; Region: PRK04164 177439008622 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 177439008623 Rubredoxin; Region: Rubredoxin; pfam00301 177439008624 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 177439008625 iron binding site [ion binding]; other site 177439008626 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177439008627 Coenzyme A binding pocket [chemical binding]; other site 177439008628 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 177439008629 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 177439008630 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 177439008631 glutaminase active site [active] 177439008632 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 177439008633 dimer interface [polypeptide binding]; other site 177439008634 active site 177439008635 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 177439008636 dimer interface [polypeptide binding]; other site 177439008637 active site 177439008638 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177439008639 active site 177439008640 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 177439008641 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 177439008642 HflX GTPase family; Region: HflX; cd01878 177439008643 G1 box; other site 177439008644 GTP/Mg2+ binding site [chemical binding]; other site 177439008645 Switch I region; other site 177439008646 G2 box; other site 177439008647 G3 box; other site 177439008648 Switch II region; other site 177439008649 G4 box; other site 177439008650 G5 box; other site 177439008651 NAD synthetase; Provisional; Region: PRK13981 177439008652 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 177439008653 multimer interface [polypeptide binding]; other site 177439008654 active site 177439008655 catalytic triad [active] 177439008656 protein interface 1 [polypeptide binding]; other site 177439008657 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 177439008658 homodimer interface [polypeptide binding]; other site 177439008659 NAD binding pocket [chemical binding]; other site 177439008660 ATP binding pocket [chemical binding]; other site 177439008661 Mg binding site [ion binding]; other site 177439008662 active-site loop [active] 177439008663 YceG-like family; Region: YceG; pfam02618 177439008664 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 177439008665 dimerization interface [polypeptide binding]; other site 177439008666 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 177439008667 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 177439008668 Walker A motif; other site 177439008669 ATP binding site [chemical binding]; other site 177439008670 Walker B motif; other site 177439008671 arginine finger; other site 177439008672 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 177439008673 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 177439008674 Found in ATP-dependent protease La (LON); Region: LON; smart00464 177439008675 Putative glucose-1-phosphate thymidylyltransferase, C-terminal Left-handed parallel beta-Helix (LbH) domain: Proteins in this family show simlarity to glucose-1-phosphate adenylyltransferases in that they contain N-terminal catalytic domains that...; Region: LbH_G1P_TT_C_like; cd05636 177439008676 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 177439008677 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 177439008678 substrate binding pocket [chemical binding]; other site 177439008679 membrane-bound complex binding site; other site 177439008680 hinge residues; other site 177439008681 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 177439008682 N-acetyl-D-glucosamine binding site [chemical binding]; other site 177439008683 catalytic residue [active] 177439008684 phosphomannomutase CpsG; Provisional; Region: PRK15414 177439008685 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 177439008686 active site 177439008687 substrate binding site [chemical binding]; other site 177439008688 metal binding site [ion binding]; metal-binding site 177439008689 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 177439008690 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 177439008691 Substrate binding site; other site 177439008692 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 177439008693 muropeptide transporter; Validated; Region: ampG; cl17669 177439008694 muropeptide transporter; Validated; Region: ampG; cl17669 177439008695 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 177439008696 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 177439008697 active site 177439008698 HIGH motif; other site 177439008699 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 177439008700 KMSKS motif; other site 177439008701 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 177439008702 tRNA binding surface [nucleotide binding]; other site 177439008703 anticodon binding site; other site 177439008704 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 177439008705 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 177439008706 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177439008707 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177439008708 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 177439008709 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 177439008710 Ligand Binding Site [chemical binding]; other site 177439008711 TilS substrate C-terminal domain; Region: TilS_C; smart00977 177439008712 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 177439008713 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 177439008714 G1 box; other site 177439008715 putative GEF interaction site [polypeptide binding]; other site 177439008716 GTP/Mg2+ binding site [chemical binding]; other site 177439008717 Switch I region; other site 177439008718 G2 box; other site 177439008719 G3 box; other site 177439008720 Switch II region; other site 177439008721 G4 box; other site 177439008722 G5 box; other site 177439008723 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 177439008724 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 177439008725 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 177439008726 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 177439008727 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 177439008728 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 177439008729 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 177439008730 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 177439008731 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 177439008732 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 177439008733 P loop; other site 177439008734 GTP binding site [chemical binding]; other site 177439008735 tellurium resistance terB-like protein; Region: terB_like; cd07177 177439008736 metal binding site [ion binding]; metal-binding site 177439008737 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 177439008738 HSP70 interaction site [polypeptide binding]; other site 177439008739 aspartate aminotransferase; Provisional; Region: PRK06836 177439008740 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 177439008741 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439008742 homodimer interface [polypeptide binding]; other site 177439008743 catalytic residue [active] 177439008744 ribosome-associated GTPase EngA; Region: GTPase_EngA; TIGR03594 177439008745 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 177439008746 G1 box; other site 177439008747 GTP/Mg2+ binding site [chemical binding]; other site 177439008748 Switch I region; other site 177439008749 G2 box; other site 177439008750 Switch II region; other site 177439008751 G3 box; other site 177439008752 G4 box; other site 177439008753 G5 box; other site 177439008754 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 177439008755 G1 box; other site 177439008756 GTP/Mg2+ binding site [chemical binding]; other site 177439008757 Switch I region; other site 177439008758 G2 box; other site 177439008759 G3 box; other site 177439008760 Switch II region; other site 177439008761 G4 box; other site 177439008762 G5 box; other site 177439008763 Phosphotransferase enzyme family; Region: APH; pfam01636 177439008764 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 177439008765 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 177439008766 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 177439008767 Substrate binding site; other site 177439008768 metal-binding site 177439008769 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 177439008770 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 177439008771 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 177439008772 active site 177439008773 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 177439008774 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 177439008775 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 177439008776 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 177439008777 trimer interface [polypeptide binding]; other site 177439008778 active site 177439008779 UDP-GlcNAc binding site [chemical binding]; other site 177439008780 lipid binding site [chemical binding]; lipid-binding site 177439008781 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 177439008782 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 177439008783 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 177439008784 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177439008785 catalytic residue [active] 177439008786 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 177439008787 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 177439008788 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177439008789 catalytic residue [active] 177439008790 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 177439008791 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 177439008792 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 177439008793 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 177439008794 putative active site [active] 177439008795 heme pocket [chemical binding]; other site 177439008796 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 177439008797 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 177439008798 putative active site [active] 177439008799 heme pocket [chemical binding]; other site 177439008800 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 177439008801 putative active site [active] 177439008802 heme pocket [chemical binding]; other site 177439008803 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439008804 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439008805 metal binding site [ion binding]; metal-binding site 177439008806 active site 177439008807 I-site; other site 177439008808 putative fumarate hydratase; Provisional; Region: PRK15392 177439008809 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 177439008810 Fumarase C-terminus; Region: Fumerase_C; pfam05683 177439008811 putative protease; Provisional; Region: PRK15452 177439008812 Peptidase family U32; Region: Peptidase_U32; pfam01136 177439008813 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 177439008814 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 177439008815 Ligand Binding Site [chemical binding]; other site 177439008816 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 177439008817 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 177439008818 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 177439008819 FeS/SAM binding site; other site 177439008820 TRAM domain; Region: TRAM; cl01282 177439008821 competence damage-inducible protein A; Provisional; Region: PRK00549 177439008822 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 177439008823 putative MPT binding site; other site 177439008824 Competence-damaged protein; Region: CinA; pfam02464 177439008825 recombinase A; Provisional; Region: recA; PRK09354 177439008826 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 177439008827 hexamer interface [polypeptide binding]; other site 177439008828 Walker A motif; other site 177439008829 ATP binding site [chemical binding]; other site 177439008830 Walker B motif; other site 177439008831 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 177439008832 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 177439008833 putative DNA binding site [nucleotide binding]; other site 177439008834 putative Zn2+ binding site [ion binding]; other site 177439008835 AsnC family; Region: AsnC_trans_reg; pfam01037 177439008836 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 177439008837 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 177439008838 active site 177439008839 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 177439008840 substrate binding site [chemical binding]; other site 177439008841 catalytic residues [active] 177439008842 dimer interface [polypeptide binding]; other site 177439008843 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 177439008844 Mechanosensitive ion channel; Region: MS_channel; pfam00924 177439008845 putative transporter; Reviewed; Region: PRK12369 177439008846 Trp repressor protein; Region: Trp_repressor; cl17266 177439008847 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 177439008848 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 177439008849 Ligand Binding Site [chemical binding]; other site 177439008850 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 177439008851 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 177439008852 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 177439008853 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 177439008854 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177439008855 Coenzyme A binding pocket [chemical binding]; other site 177439008856 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 177439008857 Domain of unknown function (DUF364); Region: DUF364; pfam04016 177439008858 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 177439008859 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 177439008860 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 177439008861 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 177439008862 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 177439008863 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 177439008864 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 177439008865 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 177439008866 Walker A/P-loop; other site 177439008867 ATP binding site [chemical binding]; other site 177439008868 Q-loop/lid; other site 177439008869 ABC transporter signature motif; other site 177439008870 Walker B; other site 177439008871 D-loop; other site 177439008872 H-loop/switch region; other site 177439008873 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 177439008874 NTPase; Region: NTPase_1; cl17478 177439008875 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 177439008876 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 177439008877 ABC-ATPase subunit interface; other site 177439008878 dimer interface [polypeptide binding]; other site 177439008879 putative PBP binding regions; other site 177439008880 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 177439008881 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 177439008882 intersubunit interface [polypeptide binding]; other site 177439008883 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 177439008884 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 177439008885 N-terminal plug; other site 177439008886 ligand-binding site [chemical binding]; other site 177439008887 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177439008888 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 177439008889 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 177439008890 [4Fe-4S] binding site [ion binding]; other site 177439008891 molybdopterin cofactor binding site; other site 177439008892 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 177439008893 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 177439008894 molybdopterin cofactor binding site; other site 177439008895 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 177439008896 4Fe-4S binding domain; Region: Fer4; cl02805 177439008897 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 177439008898 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 177439008899 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 177439008900 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 177439008901 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 177439008902 dimer interface [polypeptide binding]; other site 177439008903 putative functional site; other site 177439008904 putative MPT binding site; other site 177439008905 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 177439008906 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 177439008907 FeS/SAM binding site; other site 177439008908 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 177439008909 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 177439008910 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177439008911 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177439008912 dimer interface [polypeptide binding]; other site 177439008913 putative CheW interface [polypeptide binding]; other site 177439008914 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 177439008915 active site 177439008916 catalytic triad [active] 177439008917 oxyanion hole [active] 177439008918 Autotransporter beta-domain; Region: Autotransporter; cl17461 177439008919 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 177439008920 DOMON-like domain of an uncharacterized protein family; Region: DOMON_like_cytochrome; cd09625 177439008921 putative ligand binding site [chemical binding]; other site 177439008922 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 177439008923 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 177439008924 tetramer interface [polypeptide binding]; other site 177439008925 heme binding pocket [chemical binding]; other site 177439008926 NADPH binding site [chemical binding]; other site 177439008927 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177439008928 Cysteine-rich domain; Region: CCG; pfam02754 177439008929 Cysteine-rich domain; Region: CCG; pfam02754 177439008930 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 177439008931 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 177439008932 dimer interface [polypeptide binding]; other site 177439008933 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 177439008934 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 177439008935 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 177439008936 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 177439008937 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 177439008938 homodimer interface [polypeptide binding]; other site 177439008939 oligonucleotide binding site [chemical binding]; other site 177439008940 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 177439008941 Organic solvent tolerance protein; Region: OstA_C; pfam04453 177439008942 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 177439008943 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 177439008944 hinge; other site 177439008945 active site 177439008946 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 177439008947 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 177439008948 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 177439008949 shikimate binding site; other site 177439008950 NAD(P) binding site [chemical binding]; other site 177439008951 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 177439008952 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 177439008953 active site 177439008954 catalytic residue [active] 177439008955 dimer interface [polypeptide binding]; other site 177439008956 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 177439008957 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 177439008958 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 177439008959 heterodimer interface [polypeptide binding]; other site 177439008960 active site 177439008961 FMN binding site [chemical binding]; other site 177439008962 homodimer interface [polypeptide binding]; other site 177439008963 substrate binding site [chemical binding]; other site 177439008964 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 177439008965 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 177439008966 FAD binding pocket [chemical binding]; other site 177439008967 FAD binding motif [chemical binding]; other site 177439008968 phosphate binding motif [ion binding]; other site 177439008969 beta-alpha-beta structure motif; other site 177439008970 NAD binding pocket [chemical binding]; other site 177439008971 Iron coordination center [ion binding]; other site 177439008972 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 177439008973 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 177439008974 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 177439008975 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 177439008976 Phospholipid methyltransferase; Region: PEMT; cl17370 177439008977 Ion channel; Region: Ion_trans_2; pfam07885 177439008978 Uncharacterized conserved protein [Function unknown]; Region: COG0397 177439008979 hypothetical protein; Validated; Region: PRK00029 177439008980 uncharacterized domain; Region: TIGR00702 177439008981 YcaO-like family; Region: YcaO; pfam02624 177439008982 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 177439008983 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 177439008984 active site 177439008985 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 177439008986 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 177439008987 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 177439008988 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 177439008989 dimer interface [polypeptide binding]; other site 177439008990 active site 177439008991 glycine loop; other site 177439008992 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 177439008993 putative catalytic cysteine [active] 177439008994 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 177439008995 Hexamer/Pentamer interface [polypeptide binding]; other site 177439008996 central pore; other site 177439008997 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 177439008998 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 177439008999 Hexamer interface [polypeptide binding]; other site 177439009000 Hexagonal pore residue; other site 177439009001 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 177439009002 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 177439009003 Hexamer interface [polypeptide binding]; other site 177439009004 Hexagonal pore residue; other site 177439009005 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 177439009006 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 177439009007 putative hexamer interface [polypeptide binding]; other site 177439009008 putative hexagonal pore; other site 177439009009 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 177439009010 putative hexamer interface [polypeptide binding]; other site 177439009011 putative hexagonal pore; other site 177439009012 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 177439009013 SLBB domain; Region: SLBB; pfam10531 177439009014 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 177439009015 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 177439009016 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 177439009017 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 177439009018 Hexamer interface [polypeptide binding]; other site 177439009019 Hexagonal pore residue; other site 177439009020 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 177439009021 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 177439009022 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 177439009023 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 177439009024 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 177439009025 nucleotide binding site [chemical binding]; other site 177439009026 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 177439009027 nucleotide binding site [chemical binding]; other site 177439009028 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 177439009029 putative catalytic cysteine [active] 177439009030 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 177439009031 Hexamer/Pentamer interface [polypeptide binding]; other site 177439009032 central pore; other site 177439009033 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 177439009034 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 177439009035 Hexamer interface [polypeptide binding]; other site 177439009036 Hexagonal pore residue; other site 177439009037 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 177439009038 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 177439009039 Hexamer interface [polypeptide binding]; other site 177439009040 Hexagonal pore residue; other site 177439009041 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 177439009042 putative hexamer interface [polypeptide binding]; other site 177439009043 putative hexagonal pore; other site 177439009044 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 177439009045 putative hexamer interface [polypeptide binding]; other site 177439009046 putative hexagonal pore; other site 177439009047 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 177439009048 SLBB domain; Region: SLBB; pfam10531 177439009049 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 177439009050 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 177439009051 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 177439009052 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 177439009053 Hexamer interface [polypeptide binding]; other site 177439009054 Hexagonal pore residue; other site 177439009055 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 177439009056 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 177439009057 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 177439009058 active site 177439009059 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 177439009060 Ligand binding site [chemical binding]; other site 177439009061 Electron transfer flavoprotein domain; Region: ETF; pfam01012 177439009062 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177439009063 4Fe-4S binding domain; Region: Fer4; pfam00037 177439009064 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 177439009065 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 177439009066 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 177439009067 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177439009068 4Fe-4S binding domain; Region: Fer4; cl02805 177439009069 Cysteine-rich domain; Region: CCG; pfam02754 177439009070 Cysteine-rich domain; Region: CCG; pfam02754 177439009071 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 177439009072 DctM-like transporters; Region: DctM; pfam06808 177439009073 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 177439009074 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177439009075 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 177439009076 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177439009077 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 177439009078 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 177439009079 PAS domain; Region: PAS_9; pfam13426 177439009080 putative active site [active] 177439009081 heme pocket [chemical binding]; other site 177439009082 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 177439009083 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 177439009084 Walker A motif; other site 177439009085 ATP binding site [chemical binding]; other site 177439009086 Walker B motif; other site 177439009087 arginine finger; other site 177439009088 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177439009089 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 177439009090 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 177439009091 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 177439009092 Tetramer interface [polypeptide binding]; other site 177439009093 active site 177439009094 FMN-binding site [chemical binding]; other site 177439009095 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 177439009096 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 177439009097 Cl- selectivity filter; other site 177439009098 Cl- binding residues [ion binding]; other site 177439009099 pore gating glutamate residue; other site 177439009100 dimer interface [polypeptide binding]; other site 177439009101 FOG: CBS domain [General function prediction only]; Region: COG0517 177439009102 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 177439009103 TrkA-C domain; Region: TrkA_C; pfam02080 177439009104 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 177439009105 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 177439009106 putative metal binding residues [ion binding]; other site 177439009107 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177439009108 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 177439009109 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 177439009110 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 177439009111 ABC-ATPase subunit interface; other site 177439009112 dimer interface [polypeptide binding]; other site 177439009113 putative PBP binding regions; other site 177439009114 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 177439009115 Ligand binding site; other site 177439009116 metal-binding site 177439009117 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 177439009118 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 177439009119 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 177439009120 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 177439009121 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 177439009122 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 177439009123 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 177439009124 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 177439009125 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 177439009126 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 177439009127 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 177439009128 4Fe-4S binding domain; Region: Fer4; cl02805 177439009129 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177439009130 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 177439009131 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 177439009132 C-terminal peptidase (prc); Region: prc; TIGR00225 177439009133 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 177439009134 protein binding site [polypeptide binding]; other site 177439009135 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 177439009136 Catalytic dyad [active] 177439009137 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 177439009138 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 177439009139 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 177439009140 tRNA; other site 177439009141 putative tRNA binding site [nucleotide binding]; other site 177439009142 putative NADP binding site [chemical binding]; other site 177439009143 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 177439009144 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 177439009145 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 177439009146 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 177439009147 Putative methyltransferase; Region: Methyltransf_16; pfam10294 177439009148 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 177439009149 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 177439009150 catalytic residues [active] 177439009151 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 177439009152 SurA N-terminal domain; Region: SurA_N; pfam09312 177439009153 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 177439009154 Helix-turn-helix domain; Region: HTH_25; pfam13413 177439009155 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 177439009156 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 177439009157 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 177439009158 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 177439009159 lipoyl-biotinyl attachment site [posttranslational modification]; other site 177439009160 Dicarboxylate transport; Region: DctA-YdbH; cl14674 177439009161 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 177439009162 Methyltransferase domain; Region: Methyltransf_31; pfam13847 177439009163 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 177439009164 Methyltransferase domain; Region: Methyltransf_23; pfam13489 177439009165 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 177439009166 S-adenosylmethionine binding site [chemical binding]; other site 177439009167 Methyltransferase domain; Region: Methyltransf_23; pfam13489 177439009168 Methyltransferase domain; Region: Methyltransf_11; pfam08241 177439009169 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 177439009170 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 177439009171 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 177439009172 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 177439009173 catalytic site [active] 177439009174 subunit interface [polypeptide binding]; other site 177439009175 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 177439009176 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 177439009177 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 177439009178 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 177439009179 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 177439009180 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177439009181 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 177439009182 IMP binding site; other site 177439009183 dimer interface [polypeptide binding]; other site 177439009184 interdomain contacts; other site 177439009185 partial ornithine binding site; other site 177439009186 FtsH Extracellular; Region: FtsH_ext; pfam06480 177439009187 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 177439009188 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 177439009189 Walker A motif; other site 177439009190 ATP binding site [chemical binding]; other site 177439009191 Walker B motif; other site 177439009192 arginine finger; other site 177439009193 Peptidase family M41; Region: Peptidase_M41; pfam01434 177439009194 dihydropteroate synthase; Region: DHPS; TIGR01496 177439009195 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 177439009196 substrate binding pocket [chemical binding]; other site 177439009197 dimer interface [polypeptide binding]; other site 177439009198 inhibitor binding site; inhibition site 177439009199 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 177439009200 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 177439009201 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 177439009202 zinc binding site [ion binding]; other site 177439009203 putative ligand binding site [chemical binding]; other site 177439009204 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 177439009205 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177439009206 TM-ABC transporter signature motif; other site 177439009207 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 177439009208 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439009209 Walker A/P-loop; other site 177439009210 ATP binding site [chemical binding]; other site 177439009211 Q-loop/lid; other site 177439009212 ABC transporter signature motif; other site 177439009213 Walker B; other site 177439009214 D-loop; other site 177439009215 H-loop/switch region; other site 177439009216 NAD-dependent deacetylase; Provisional; Region: PRK00481 177439009217 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 177439009218 NAD+ binding site [chemical binding]; other site 177439009219 substrate binding site [chemical binding]; other site 177439009220 Zn binding site [ion binding]; other site 177439009221 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 177439009222 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 177439009223 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 177439009224 active site 177439009225 PAS domain; Region: PAS; smart00091 177439009226 PAS fold; Region: PAS; pfam00989 177439009227 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 177439009228 PAS fold; Region: PAS_3; pfam08447 177439009229 putative active site [active] 177439009230 heme pocket [chemical binding]; other site 177439009231 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 177439009232 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 177439009233 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177439009234 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177439009235 metal binding site [ion binding]; metal-binding site 177439009236 active site 177439009237 I-site; other site 177439009238 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 177439009239 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 177439009240 CoenzymeA binding site [chemical binding]; other site 177439009241 subunit interaction site [polypeptide binding]; other site 177439009242 PHB binding site; other site 177439009243 Tim44-like domain; Region: Tim44; pfam04280 177439009244 Response regulator receiver domain; Region: Response_reg; pfam00072 177439009245 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 177439009246 active site 177439009247 phosphorylation site [posttranslational modification] 177439009248 intermolecular recognition site; other site 177439009249 dimerization interface [polypeptide binding]; other site 177439009250 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 177439009251 dimer interface [polypeptide binding]; other site 177439009252 phosphorylation site [posttranslational modification] 177439009253 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 177439009254 ATP binding site [chemical binding]; other site 177439009255 Mg2+ binding site [ion binding]; other site 177439009256 G-X-G motif; other site 177439009257 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177439009258 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 177439009259 active site 177439009260 phosphorylation site [posttranslational modification] 177439009261 intermolecular recognition site; other site 177439009262 dimerization interface [polypeptide binding]; other site 177439009263 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 177439009264 B12 binding domain; Region: B12-binding; pfam02310 177439009265 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 177439009266 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 177439009267 pyruvate kinase; Provisional; Region: PRK06354 177439009268 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 177439009269 domain interfaces; other site 177439009270 active site 177439009271 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 177439009272 flavoprotein, HI0933 family; Region: TIGR00275 177439009273 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 177439009274 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 177439009275 hypothetical protein; Provisional; Region: PRK09256 177439009276 Replication initiator protein A; Region: RPA; cl17860 177439009277 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 177439009278 P-loop; other site 177439009279 Magnesium ion binding site [ion binding]; other site 177439009280 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 177439009281 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 177439009282 putative active site [active] 177439009283 putative NTP binding site [chemical binding]; other site 177439009284 putative nucleic acid binding site [nucleotide binding]; other site 177439009285 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 177439009286 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 177439009287 P-loop; other site 177439009288 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 177439009289 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 177439009290 ATP binding site [chemical binding]; other site 177439009291 Walker A motif; other site 177439009292 hexamer interface [polypeptide binding]; other site 177439009293 Walker B motif; other site 177439009294 TrbC/VIRB2 family; Region: TrbC; pfam04956 177439009295 Type IV secretory pathway, VirB3-like protein; Region: VirB3; pfam05101 177439009296 conjugal transfer protein TrbE; Provisional; Region: PRK13891 177439009297 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 177439009298 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439009299 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 177439009300 Walker A motif; other site 177439009301 Walker A/P-loop; other site 177439009302 ATP binding site [chemical binding]; other site 177439009303 ATP binding site [chemical binding]; other site 177439009304 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439009305 Walker B; other site 177439009306 D-loop; other site 177439009307 H-loop/switch region; other site 177439009308 P-type conjugative transfer protein TrbJ; Region: TrbJ_Ti; TIGR02780 177439009309 P-type conjugative transfer protein TrbL; Region: TrbL_P; TIGR02783 177439009310 VirB8 protein; Region: VirB8; cl01500 177439009311 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 177439009312 VirB7 interaction site; other site 177439009313 Conjugal transfer protein TrbH; Region: TrbH; pfam07283 177439009314 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 177439009315 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 177439009316 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 177439009317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 177439009318 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 177439009319 active site 177439009320 metal binding site [ion binding]; metal-binding site 177439009321 interdomain interaction site; other site 177439009322 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 177439009323 Walker A motif; other site 177439009324 ATP binding site [chemical binding]; other site 177439009325 Walker B motif; other site 177439009326 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 177439009327 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 177439009328 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 177439009329 TrbM; Region: TrbM; pfam07424 177439009330 Uncharacterized conserved protein [Function unknown]; Region: COG1479 177439009331 Protein of unknown function DUF262; Region: DUF262; pfam03235 177439009332 Protein of unknown function DUF262; Region: DUF262; pfam03235 177439009333 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 177439009334 acetyl-CoA synthetase; Provisional; Region: PRK04319 177439009335 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 177439009336 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 177439009337 active site 177439009338 acyl-activating enzyme (AAE) consensus motif; other site 177439009339 putative CoA binding site [chemical binding]; other site 177439009340 AMP binding site [chemical binding]; other site 177439009341 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 177439009342 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 177439009343 tetramer interface [polypeptide binding]; other site 177439009344 TPP-binding site [chemical binding]; other site 177439009345 heterodimer interface [polypeptide binding]; other site 177439009346 phosphorylation loop region [posttranslational modification] 177439009347 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 177439009348 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 177439009349 alpha subunit interface [polypeptide binding]; other site 177439009350 TPP binding site [chemical binding]; other site 177439009351 heterodimer interface [polypeptide binding]; other site 177439009352 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 177439009353 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 177439009354 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 177439009355 E3 interaction surface; other site 177439009356 lipoyl attachment site [posttranslational modification]; other site 177439009357 e3 binding domain; Region: E3_binding; pfam02817 177439009358 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 177439009359 Phosphopantetheine attachment site; Region: PP-binding; cl09936 177439009360 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 177439009361 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 177439009362 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 177439009363 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 177439009364 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 177439009365 Helix-turn-helix domain; Region: HTH_36; pfam13730 177439009366 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 177439009367 non-specific DNA binding site [nucleotide binding]; other site 177439009368 salt bridge; other site 177439009369 sequence-specific DNA binding site [nucleotide binding]; other site 177439009370 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 177439009371 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 177439009372 Transposase, Mutator family; Region: Transposase_mut; pfam00872 177439009373 MULE transposase domain; Region: MULE; pfam10551 177439009374 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 177439009375 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 177439009376 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 177439009377 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 177439009378 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 177439009379 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177439009380 Surface antigen; Region: Bac_surface_Ag; pfam01103 177439009381 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 177439009382 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 177439009383 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 177439009384 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 177439009385 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 177439009386 non-specific DNA binding site [nucleotide binding]; other site 177439009387 salt bridge; other site 177439009388 sequence-specific DNA binding site [nucleotide binding]; other site 177439009389 Predicted ATPase [General function prediction only]; Region: COG4637 177439009390 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439009391 Walker A/P-loop; other site 177439009392 ATP binding site [chemical binding]; other site 177439009393 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177439009394 ABC transporter signature motif; other site 177439009395 Walker B; other site 177439009396 D-loop; other site 177439009397 H-loop/switch region; other site 177439009398 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 177439009399 Helix-turn-helix domain; Region: HTH_36; pfam13730 177439009400 UDP-glucose 4-epimerase; Region: PLN02240 177439009401 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 177439009402 NAD binding site [chemical binding]; other site 177439009403 homodimer interface [polypeptide binding]; other site 177439009404 active site 177439009405 substrate binding site [chemical binding]; other site 177439009406 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 177439009407 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 177439009408 active site 177439009409 tetramer interface; other site 177439009410 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 177439009411 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 177439009412 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 177439009413 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 177439009414 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 177439009415 Oligosaccharide biosynthesis protein Alg14 like; Region: Alg14; pfam08660 177439009416 Integrase core domain; Region: rve; pfam00665 177439009417 Integrase core domain; Region: rve_3; pfam13683 177439009418 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 177439009419 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 177439009420 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177439009421 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 177439009422 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 177439009423 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 177439009424 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 177439009425 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 177439009426 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177439009427 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 177439009428 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 177439009429 transcriptional activator RfaH; Region: RfaH; TIGR01955 177439009430 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 177439009431 O-Antigen ligase; Region: Wzy_C; pfam04932 177439009432 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 177439009433 binding surface 177439009434 TPR motif; other site 177439009435 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 177439009436 TPR motif; other site 177439009437 binding surface 177439009438 TPR repeat; Region: TPR_11; pfam13414 177439009439 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 177439009440 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 177439009441 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 177439009442 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 177439009443 Chain length determinant protein; Region: Wzz; cl15801 177439009444 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 177439009445 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 177439009446 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 177439009447 SLBB domain; Region: SLBB; pfam10531 177439009448 SLBB domain; Region: SLBB; pfam10531 177439009449 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 177439009450 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 177439009451 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 177439009452 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 177439009453 Bacterial sugar transferase; Region: Bac_transf; pfam02397 177439009454 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 177439009455 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 177439009456 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 177439009457 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 177439009458 multiple promoter invertase; Provisional; Region: mpi; PRK13413 177439009459 catalytic residues [active] 177439009460 catalytic nucleophile [active] 177439009461 Presynaptic Site I dimer interface [polypeptide binding]; other site 177439009462 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 177439009463 Synaptic Flat tetramer interface [polypeptide binding]; other site 177439009464 Synaptic Site I dimer interface [polypeptide binding]; other site 177439009465 DNA binding site [nucleotide binding] 177439009466 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 177439009467 DNA-binding interface [nucleotide binding]; DNA binding site 177439009468 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177439009469 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177439009470 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 177439009471 RibD C-terminal domain; Region: RibD_C; cl17279 177439009472 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177439009473 Coenzyme A binding pocket [chemical binding]; other site 177439009474 Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator; Region: HTH_Cfa; cd04789 177439009475 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 177439009476 DNA binding residues [nucleotide binding] 177439009477 putative dimer interface [polypeptide binding]; other site 177439009478 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 177439009479 S-adenosylmethionine binding site [chemical binding]; other site 177439009480 Divergent AAA domain; Region: AAA_4; pfam04326 177439009481 Initiator Replication protein; Region: Rep_3; pfam01051 177439009482 CHC2 zinc finger; Region: zf-CHC2; cl17510 177439009483 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 177439009484 Walker A motif; other site 177439009485 ATP binding site [chemical binding]; other site 177439009486 Walker B motif; other site 177439009487 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 177439009488 HSP70 interaction site [polypeptide binding]; other site 177439009489 phosphoglycolate/pyridoxal phosphate phosphatase family; Region: PGP_euk; TIGR01452