-- dump date 20140620_022958 -- class Genbank::misc_feature -- table misc_feature_note -- id note 381666000001 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 381666000002 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 381666000003 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 381666000004 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 381666000005 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 381666000006 Ni,Fe-hydrogenase I cytochrome b subunit [Energy production and conversion]; Region: HyaC; COG1969 381666000007 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 381666000008 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 381666000009 putative substrate-binding site; other site 381666000010 nickel binding site [ion binding]; other site 381666000011 HupF/HypC family; Region: HupF_HypC; pfam01455 381666000012 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 381666000013 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 381666000014 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 381666000015 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 381666000016 Rubredoxin; Region: Rubredoxin; pfam00301 381666000017 iron binding site [ion binding]; other site 381666000018 Protein of unknown function (DUF3457); Region: DUF3457; pfam11939 381666000019 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 381666000020 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 381666000021 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 381666000022 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 381666000023 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 381666000024 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 381666000025 HupF/HypC family; Region: HupF_HypC; pfam01455 381666000026 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 381666000027 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 381666000028 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 381666000029 dimerization interface [polypeptide binding]; other site 381666000030 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 381666000031 ATP binding site [chemical binding]; other site 381666000032 HypX protein, N-terminal hydrolase domain; Region: FMT_core_HypX_N; cd08650 381666000033 putative active site [active] 381666000034 putative substrate binding site [chemical binding]; other site 381666000035 putative cosubstrate binding site; other site 381666000036 catalytic site [active] 381666000037 C-terminal subdomain of the Formyltransferase-like domain found in HypX-like proteins; Region: FMT_C_HypX; cd08701 381666000038 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666000039 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 381666000040 substrate binding site [chemical binding]; other site 381666000041 oxyanion hole (OAH) forming residues; other site 381666000042 trimer interface [polypeptide binding]; other site 381666000043 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 381666000044 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 381666000045 active site 381666000046 phosphorylation site [posttranslational modification] 381666000047 intermolecular recognition site; other site 381666000048 dimerization interface [polypeptide binding]; other site 381666000049 Protein of unknown function (DUF2861); Region: DUF2861; pfam11060 381666000050 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 381666000051 Walker A motif; other site 381666000052 ATP binding site [chemical binding]; other site 381666000053 Walker B motif; other site 381666000054 arginine finger; other site 381666000055 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 381666000056 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 381666000057 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 381666000058 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 381666000059 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 381666000060 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 381666000061 putative active site [active] 381666000062 heme pocket [chemical binding]; other site 381666000063 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 381666000064 dimer interface [polypeptide binding]; other site 381666000065 phosphorylation site [posttranslational modification] 381666000066 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 381666000067 ATP binding site [chemical binding]; other site 381666000068 Mg2+ binding site [ion binding]; other site 381666000069 G-X-G motif; other site 381666000070 high-affinity nickel-transporter, HoxN/HupN/NixA family; Region: nico; TIGR00802 381666000071 similar to IS881 transposase 381666000072 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 381666000073 active site 381666000074 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 381666000075 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 381666000076 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 381666000077 Integrase core domain; Region: rve_3; pfam13683 381666000078 HTH-like domain; Region: HTH_21; pfam13276 381666000079 Integrase core domain; Region: rve; pfam00665 381666000080 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 381666000081 Transposase; Region: HTH_Tnp_1; cl17663 381666000082 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 381666000083 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 381666000084 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000085 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 381666000086 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 381666000087 Int/Topo IB signature motif; other site 381666000088 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000089 INT_SG4, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 4, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases for which not much biochemical characterization is available; Region: INT_SG4; cd01187 381666000090 Int/Topo IB signature motif; other site 381666000091 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000092 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 381666000093 Int/Topo IB signature motif; other site 381666000094 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 381666000095 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000096 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 381666000097 Int/Topo IB signature motif; other site 381666000098 INT_SG4, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 4, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases for which not much biochemical characterization is available; Region: INT_SG4; cd01187 381666000099 Int/Topo IB signature motif; other site 381666000100 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000101 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 381666000102 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 381666000103 Int/Topo IB signature motif; other site 381666000104 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 381666000105 Transposase; Region: DDE_Tnp_ISL3; pfam01610 381666000106 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 381666000107 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 381666000108 active site 381666000109 Int/Topo IB signature motif; other site 381666000110 DNA binding site [nucleotide binding] 381666000111 INT_SG4, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 4, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases for which not much biochemical characterization is available; Region: INT_SG4; cd01187 381666000112 Int/Topo IB signature motif; other site 381666000113 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000114 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 381666000115 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 381666000116 Int/Topo IB signature motif; other site 381666000117 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 381666000118 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000119 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 381666000120 Int/Topo IB signature motif; other site 381666000121 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 381666000122 nickel binding site [ion binding]; other site 381666000123 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 381666000124 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 381666000125 active site 381666000126 catalytic residues [active] 381666000127 DNA binding site [nucleotide binding] 381666000128 Int/Topo IB signature motif; other site 381666000129 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 381666000130 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 381666000131 Int/Topo IB signature motif; other site 381666000132 INT_SG4, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 4, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases for which not much biochemical characterization is available; Region: INT_SG4; cd01187 381666000133 Int/Topo IB signature motif; other site 381666000134 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 381666000135 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 381666000136 Int/Topo IB signature motif; other site 381666000137 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 381666000138 active site 381666000139 catalytic residues [active] 381666000140 DNA binding site [nucleotide binding] 381666000141 Int/Topo IB signature motif; other site 381666000142 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 381666000143 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 381666000144 Transposase domain (DUF772); Region: DUF772; pfam05598 381666000145 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 381666000146 High-affinity nickel-transport protein; Region: NicO; cl00964 381666000147 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 381666000148 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 381666000149 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 381666000150 Putative [NiFe] hydrogenase-specific C-terminal protease. Sequence comparison shows similarity to hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). Maturation of [FeNi] hydrogenases includes formation of...; Region: H2MP_like-1; cd06068 381666000151 nickel binding site [ion binding]; other site 381666000152 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 381666000153 Acylphosphatase; Region: Acylphosphatase; pfam00708 381666000154 HypF finger; Region: zf-HYPF; pfam07503 381666000155 HypF finger; Region: zf-HYPF; pfam07503 381666000156 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 381666000157 HupF/HypC family; Region: HupF_HypC; pfam01455 381666000158 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 381666000159 dimer interface [polypeptide binding]; other site 381666000160 active site 381666000161 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 381666000162 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 381666000163 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 381666000164 dimerization interface [polypeptide binding]; other site 381666000165 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 381666000166 ATP binding site [chemical binding]; other site 381666000167 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 381666000168 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 381666000169 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 381666000170 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 381666000171 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 381666000172 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 381666000173 ATP binding site [chemical binding]; other site 381666000174 Mg2+ binding site [ion binding]; other site 381666000175 G-X-G motif; other site 381666000176 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 381666000177 DNA binding site [nucleotide binding] 381666000178 active site 381666000179 Int/Topo IB signature motif; other site 381666000180 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 381666000181 Transposase; Region: HTH_Tnp_1; cl17663 381666000182 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 381666000183 Putative transposase; Region: Y2_Tnp; pfam04986 381666000184 Putative transposase; Region: Y2_Tnp; pfam04986 381666000185 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 381666000186 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 381666000187 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, hoxF; composed of proteins similar to the NAD-reducing hydrogenase (hoxS) alpha subunit of Alcaligenes eutrophus H16. HoxS is a cytoplasmic hydrogenase...; Region: TRX_Fd_NuoE_hoxF; cd03083 381666000188 putative dimer interface [polypeptide binding]; other site 381666000189 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 381666000190 SLBB domain; Region: SLBB; pfam10531 381666000191 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 381666000192 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 381666000193 catalytic loop [active] 381666000194 iron binding site [ion binding]; other site 381666000195 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 381666000196 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 381666000197 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 381666000198 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 381666000199 Endopeptidases that belong to the bidirectional NAD-linked hydrogenase group. This group of endopeptidases are highly specific carboxyl-terminal protease (HoxW protease) which releases a 24-amino-acid peptide from HoxH prior to progression of subunit...; Region: H2MP_NAD-link-bidir; cd06066 381666000200 nickel binding site [ion binding]; other site 381666000201 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 381666000202 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666000203 ligand binding site [chemical binding]; other site 381666000204 flexible hinge region; other site 381666000205 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 381666000206 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 381666000207 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 381666000208 G1 box; other site 381666000209 GTP/Mg2+ binding site [chemical binding]; other site 381666000210 G2 box; other site 381666000211 Switch I region; other site 381666000212 G3 box; other site 381666000213 Switch II region; other site 381666000214 G4 box; other site 381666000215 G5 box; other site 381666000216 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 381666000217 Acylphosphatase; Region: Acylphosphatase; pfam00708 381666000218 HypF finger; Region: zf-HYPF; pfam07503 381666000219 HypF finger; Region: zf-HYPF; pfam07503 381666000220 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 381666000221 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000222 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 381666000223 Int/Topo IB signature motif; other site 381666000224 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 381666000225 Transposase; Region: DDE_Tnp_ISL3; pfam01610 381666000226 AAA ATPase domain; Region: AAA_16; pfam13191 381666000227 AAA domain; Region: AAA_22; pfam13401 381666000228 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 381666000229 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 381666000230 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 381666000231 Catalytic domain of Protein Kinases; Region: PKc; cd00180 381666000232 active site 381666000233 ATP binding site [chemical binding]; other site 381666000234 substrate binding site [chemical binding]; other site 381666000235 activation loop (A-loop); other site 381666000236 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 381666000237 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 381666000238 Walker A motif; other site 381666000239 ATP binding site [chemical binding]; other site 381666000240 Walker B motif; other site 381666000241 arginine finger; other site 381666000242 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 381666000243 active site 381666000244 catalytic triad [active] 381666000245 alternate site of translation initiation 381666000246 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 381666000247 alternate site of translation initiation 381666000248 Integrase core domain; Region: rve_3; cl15866 381666000249 Integrase core domain; Region: rve; pfam00665 381666000250 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 381666000251 alternate site of translation initiation 381666000252 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 381666000253 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 381666000254 alternate site of translation initiation 381666000255 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 381666000256 potassium uptake protein; Region: kup; TIGR00794 381666000257 alternate site of translation initiation 381666000258 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 381666000259 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 381666000260 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 381666000261 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 381666000262 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 381666000263 active site 381666000264 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 381666000265 dimer interface [polypeptide binding]; other site 381666000266 catalytic residues [active] 381666000267 substrate binding site [chemical binding]; other site 381666000268 IucA / IucC family; Region: IucA_IucC; pfam04183 381666000269 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 381666000270 drug efflux system protein MdtG; Provisional; Region: PRK09874 381666000271 IucA / IucC family; Region: IucA_IucC; pfam04183 381666000272 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 381666000273 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 381666000274 alternate site of translation initiation 381666000275 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 381666000276 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 381666000277 N-terminal plug; other site 381666000278 ligand-binding site [chemical binding]; other site 381666000279 alternate site of translation initiation 381666000280 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 381666000281 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 381666000282 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 381666000283 Int/Topo IB signature motif; other site 381666000284 INT_SG4, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 4, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases for which not much biochemical characterization is available; Region: INT_SG4; cd01187 381666000285 Int/Topo IB signature motif; other site 381666000286 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 381666000287 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000288 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 381666000289 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 381666000290 Int/Topo IB signature motif; other site 381666000291 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000292 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 381666000293 Int/Topo IB signature motif; other site 381666000294 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 381666000295 active site 381666000296 Int/Topo IB signature motif; other site 381666000297 INT_SG4, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 4, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases for which not much biochemical characterization is available; Region: INT_SG4; cd01187 381666000298 Int/Topo IB signature motif; other site 381666000299 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 381666000300 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 381666000301 Int/Topo IB signature motif; other site 381666000302 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 381666000303 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 381666000304 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 381666000305 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 381666000306 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 381666000307 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 381666000308 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 381666000309 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 381666000310 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 381666000311 Abortive infection C-terminus; Region: Abi_C; pfam14355 381666000312 Abortive infection C-terminus; Region: Abi_C; pfam14355 381666000313 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666000314 AAA domain; Region: AAA_21; pfam13304 381666000315 Walker A/P-loop; other site 381666000316 ATP binding site [chemical binding]; other site 381666000317 Family description; Region: UvrD_C_2; pfam13538 381666000318 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cl15347 381666000319 starch-binding site 1 [chemical binding]; other site 381666000320 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 381666000321 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 381666000322 Transposase; Region: HTH_Tnp_1; pfam01527 381666000323 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 381666000324 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 381666000325 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 381666000326 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 381666000327 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 381666000328 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 381666000329 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 381666000330 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 381666000331 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 381666000332 Part of AAA domain; Region: AAA_19; pfam13245 381666000333 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 381666000334 Family description; Region: UvrD_C_2; pfam13538 381666000335 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 381666000336 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666000337 Walker A/P-loop; other site 381666000338 ATP binding site [chemical binding]; other site 381666000339 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 381666000340 putative active site [active] 381666000341 putative metal-binding site [ion binding]; other site 381666000342 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 381666000343 DNA-binding site [nucleotide binding]; DNA binding site 381666000344 RNA-binding motif; other site 381666000345 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 381666000346 Restriction endonuclease; Region: Mrr_cat; pfam04471 381666000347 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 381666000348 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 381666000349 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 381666000350 Uncharacterized conserved protein [Function unknown]; Region: COG4279 381666000351 SWIM zinc finger; Region: SWIM; pfam04434 381666000352 SNF2 Helicase protein; Region: DUF3670; pfam12419 381666000353 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 381666000354 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 381666000355 ATP binding site [chemical binding]; other site 381666000356 putative Mg++ binding site [ion binding]; other site 381666000357 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 381666000358 nucleotide binding region [chemical binding]; other site 381666000359 ATP-binding site [chemical binding]; other site 381666000360 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 381666000361 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 381666000362 H-NS histone family; Region: Histone_HNS; pfam00816 381666000363 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 381666000364 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 381666000365 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 381666000366 active site 381666000367 metal binding site [ion binding]; metal-binding site 381666000368 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 381666000369 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 381666000370 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 381666000371 non-specific DNA binding site [nucleotide binding]; other site 381666000372 salt bridge; other site 381666000373 sequence-specific DNA binding site [nucleotide binding]; other site 381666000374 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 381666000375 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666000376 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 381666000377 dimer interface [polypeptide binding]; other site 381666000378 phosphorylation site [posttranslational modification] 381666000379 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 381666000380 ATP binding site [chemical binding]; other site 381666000381 Mg2+ binding site [ion binding]; other site 381666000382 G-X-G motif; other site 381666000383 SWIM zinc finger; Region: SWIM; pfam04434 381666000384 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 381666000385 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 381666000386 ATP binding site [chemical binding]; other site 381666000387 putative Mg++ binding site [ion binding]; other site 381666000388 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 381666000389 nucleotide binding region [chemical binding]; other site 381666000390 ATP-binding site [chemical binding]; other site 381666000391 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 381666000392 oligomeric interface; other site 381666000393 putative active site [active] 381666000394 homodimer interface [polypeptide binding]; other site 381666000395 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 381666000396 active site 381666000397 catalytic residues [active] 381666000398 DNA binding site [nucleotide binding] 381666000399 Int/Topo IB signature motif; other site 381666000400 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 381666000401 active site 381666000402 catalytic residues [active] 381666000403 DNA binding site [nucleotide binding] 381666000404 Int/Topo IB signature motif; other site 381666000405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 381666000406 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 381666000407 RES domain; Region: RES; pfam08808 381666000408 Hemerythrin-like domain; Region: Hr-like; cd12108 381666000409 Fe binding site [ion binding]; other site 381666000410 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 381666000411 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 381666000412 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 381666000413 heme-binding site [chemical binding]; other site 381666000414 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 381666000415 FAD binding pocket [chemical binding]; other site 381666000416 FAD binding motif [chemical binding]; other site 381666000417 phosphate binding motif [ion binding]; other site 381666000418 beta-alpha-beta structure motif; other site 381666000419 NAD binding pocket [chemical binding]; other site 381666000420 Heme binding pocket [chemical binding]; other site 381666000421 Putative exonuclease, RdgC; Region: RdgC; cl01122 381666000422 Phasin protein; Region: Phasin_2; pfam09361 381666000423 Predicted oxidoreductase [General function prediction only]; Region: COG3573 381666000424 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 381666000425 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 381666000426 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 381666000427 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 381666000428 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 381666000429 NapD protein; Region: NapD; pfam03927 381666000430 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 381666000431 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 381666000432 [4Fe-4S] binding site [ion binding]; other site 381666000433 molybdopterin cofactor binding site; other site 381666000434 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 381666000435 molybdopterin cofactor binding site; other site 381666000436 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 381666000437 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 381666000438 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 381666000439 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 381666000440 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666000441 Walker A/P-loop; other site 381666000442 ATP binding site [chemical binding]; other site 381666000443 Q-loop/lid; other site 381666000444 ABC transporter signature motif; other site 381666000445 Walker B; other site 381666000446 D-loop; other site 381666000447 H-loop/switch region; other site 381666000448 alternate site of translation initiation 381666000449 CcmB protein; Region: CcmB; cl17444 381666000450 heme exporter protein CcmC; Region: ccmC; TIGR01191 381666000451 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 381666000452 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 381666000453 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 381666000454 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 381666000455 catalytic residues [active] 381666000456 central insert; other site 381666000457 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 381666000458 alternate site of translation initiation 381666000459 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 381666000460 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 381666000461 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666000462 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 381666000463 FAD binding site [chemical binding]; other site 381666000464 substrate binding site [chemical binding]; other site 381666000465 catalytic base [active] 381666000466 Beta-Casp domain; Region: Beta-Casp; smart01027 381666000467 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 381666000468 MgtC family; Region: MgtC; pfam02308 381666000469 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 381666000470 Predicted membrane protein [Function unknown]; Region: COG3174 381666000471 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 381666000472 Ligand Binding Site [chemical binding]; other site 381666000473 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 381666000474 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 381666000475 putative NAD(P) binding site [chemical binding]; other site 381666000476 catalytic Zn binding site [ion binding]; other site 381666000477 putative substrate binding site [chemical binding]; other site 381666000478 structural Zn binding site [ion binding]; other site 381666000479 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 381666000480 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666000481 active site 381666000482 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 381666000483 Hemerythrin-like domain; Region: Hr-like; cd12108 381666000484 Fe binding site [ion binding]; other site 381666000485 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 381666000486 Transcriptional regulator; Region: Rrf2; cl17282 381666000487 Rrf2 family protein; Region: rrf2_super; TIGR00738 381666000488 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 381666000489 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 381666000490 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 381666000491 FeS/SAM binding site; other site 381666000492 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 381666000493 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 381666000494 ATP cone domain; Region: ATP-cone; pfam03477 381666000495 Class III ribonucleotide reductase; Region: RNR_III; cd01675 381666000496 effector binding site; other site 381666000497 active site 381666000498 Zn binding site [ion binding]; other site 381666000499 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 381666000500 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 381666000501 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 381666000502 Hemerythrin-like domain; Region: Hr-like; cd12108 381666000503 Fe binding site [ion binding]; other site 381666000504 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 381666000505 GAF domain; Region: GAF; pfam01590 381666000506 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 381666000507 Walker A motif; other site 381666000508 ATP binding site [chemical binding]; other site 381666000509 Walker B motif; other site 381666000510 arginine finger; other site 381666000511 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 381666000512 NosL; Region: NosL; pfam05573 381666000513 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 381666000514 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 381666000515 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 381666000516 Walker A/P-loop; other site 381666000517 ATP binding site [chemical binding]; other site 381666000518 Q-loop/lid; other site 381666000519 ABC transporter signature motif; other site 381666000520 Walker B; other site 381666000521 D-loop; other site 381666000522 H-loop/switch region; other site 381666000523 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 381666000524 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 381666000525 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 381666000526 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 381666000527 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 381666000528 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 381666000529 nitrous-oxide reductase; Validated; Region: PRK02888 381666000530 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 381666000531 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 381666000532 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 381666000533 ApbE family; Region: ApbE; pfam02424 381666000534 SCP-2 sterol transfer family; Region: SCP2; cl01225 381666000535 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 381666000536 putative protease; Provisional; Region: PRK15447 381666000537 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 381666000538 Peptidase family U32; Region: Peptidase_U32; pfam01136 381666000539 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 381666000540 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 381666000541 FMN binding site [chemical binding]; other site 381666000542 substrate binding site [chemical binding]; other site 381666000543 putative catalytic residue [active] 381666000544 DGC domain; Region: DGC; pfam08859 381666000545 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 381666000546 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 381666000547 NAD binding site [chemical binding]; other site 381666000548 homotetramer interface [polypeptide binding]; other site 381666000549 homodimer interface [polypeptide binding]; other site 381666000550 substrate binding site [chemical binding]; other site 381666000551 active site 381666000552 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666000553 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 381666000554 ligand binding site [chemical binding]; other site 381666000555 flexible hinge region; other site 381666000556 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 381666000557 putative switch regulator; other site 381666000558 non-specific DNA interactions [nucleotide binding]; other site 381666000559 DNA binding site [nucleotide binding] 381666000560 sequence specific DNA binding site [nucleotide binding]; other site 381666000561 putative cAMP binding site [chemical binding]; other site 381666000562 Hemerythrin-like domain; Region: Hr-like; cd12108 381666000563 Fe binding site [ion binding]; other site 381666000564 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 381666000565 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 381666000566 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 381666000567 dimerization interface [polypeptide binding]; other site 381666000568 GAF domain; Region: GAF_3; pfam13492 381666000569 Histidine kinase; Region: HisKA_3; pfam07730 381666000570 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 381666000571 ATP binding site [chemical binding]; other site 381666000572 Mg2+ binding site [ion binding]; other site 381666000573 G-X-G motif; other site 381666000574 transcriptional regulator NarL; Provisional; Region: PRK10651 381666000575 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 381666000576 active site 381666000577 phosphorylation site [posttranslational modification] 381666000578 intermolecular recognition site; other site 381666000579 dimerization interface [polypeptide binding]; other site 381666000580 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 381666000581 DNA binding residues [nucleotide binding] 381666000582 dimerization interface [polypeptide binding]; other site 381666000583 NnrS protein; Region: NnrS; pfam05940 381666000584 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 381666000585 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 381666000586 putative substrate translocation pore; other site 381666000587 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 381666000588 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 381666000589 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 381666000590 [4Fe-4S] binding site [ion binding]; other site 381666000591 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 381666000592 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 381666000593 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 381666000594 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 381666000595 molybdopterin cofactor binding site; other site 381666000596 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 381666000597 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 381666000598 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 381666000599 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 381666000600 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 381666000601 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 381666000602 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 381666000603 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 381666000604 ligand binding site [chemical binding]; other site 381666000605 flexible hinge region; other site 381666000606 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 381666000607 putative switch regulator; other site 381666000608 non-specific DNA interactions [nucleotide binding]; other site 381666000609 DNA binding site [nucleotide binding] 381666000610 sequence specific DNA binding site [nucleotide binding]; other site 381666000611 putative cAMP binding site [chemical binding]; other site 381666000612 alternate site of translation initiation 381666000613 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 381666000614 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 381666000615 PAS domain; Region: PAS_9; pfam13426 381666000616 putative active site [active] 381666000617 heme pocket [chemical binding]; other site 381666000618 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 381666000619 cyclase homology domain; Region: CHD; cd07302 381666000620 nucleotidyl binding site; other site 381666000621 metal binding site [ion binding]; metal-binding site 381666000622 dimer interface [polypeptide binding]; other site 381666000623 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 381666000624 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 381666000625 active site 381666000626 NTP binding site [chemical binding]; other site 381666000627 metal binding triad [ion binding]; metal-binding site 381666000628 antibiotic binding site [chemical binding]; other site 381666000629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 381666000630 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 381666000631 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 381666000632 active site 381666000633 Int/Topo IB signature motif; other site 381666000634 DNA binding site [nucleotide binding] 381666000635 Bacterial DNA-binding protein; Region: Bac_DNA_binding; pfam00216 381666000636 IHF dimer interface [polypeptide binding]; other site 381666000637 IHF - DNA interface [nucleotide binding]; other site 381666000638 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666000639 Walker A/P-loop; other site 381666000640 ATP binding site [chemical binding]; other site 381666000641 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 381666000642 active site 381666000643 metal binding site [ion binding]; metal-binding site 381666000644 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 381666000645 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 381666000646 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 381666000647 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 381666000648 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 381666000649 ATP binding site [chemical binding]; other site 381666000650 substrate interface [chemical binding]; other site 381666000651 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 381666000652 PRTRC system protein A; Region: PRTRC_A; TIGR03735 381666000653 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 381666000654 PRTRC system protein B; Region: PRTRC_B; TIGR03737 381666000655 PRTRC system protein F; Region: PRTRC_F; TIGR03742 381666000656 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 381666000657 PRTRC system protein C; Region: PRTRC_C; TIGR03738 381666000658 PRTRC system protein E; Region: PRTRC_E; TIGR03741 381666000659 ParB-like nuclease domain; Region: ParBc; pfam02195 381666000660 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 381666000661 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 381666000662 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 381666000663 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 381666000664 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 381666000665 nucleotide binding region [chemical binding]; other site 381666000666 ATP-binding site [chemical binding]; other site 381666000667 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 381666000668 Family description; Region: UvrD_C_2; pfam13538 381666000669 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 381666000670 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 381666000671 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 381666000672 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 381666000673 DNA methylase; Region: N6_N4_Mtase; pfam01555 381666000674 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 381666000675 active site 381666000676 substrate binding site [chemical binding]; other site 381666000677 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 381666000678 Mg2+ binding site [ion binding]; other site 381666000679 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 381666000680 IHF dimer interface [polypeptide binding]; other site 381666000681 IHF - DNA interface [nucleotide binding]; other site 381666000682 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 381666000683 active site 381666000684 catalytic residues [active] 381666000685 Int/Topo IB signature motif; other site 381666000686 DNA binding site [nucleotide binding] 381666000687 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 381666000688 PRTRC system protein D; Region: PRTRC_D; TIGR03739 381666000689 Mg binding site [ion binding]; other site 381666000690 nucleotide binding site [chemical binding]; other site 381666000691 putative protofilament interface [polypeptide binding]; other site 381666000692 Toprim domain; Region: Toprim_3; pfam13362 381666000693 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 381666000694 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 381666000695 dimer interface [polypeptide binding]; other site 381666000696 ssDNA binding site [nucleotide binding]; other site 381666000697 tetramer (dimer of dimers) interface [polypeptide binding]; other site 381666000698 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 381666000699 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 381666000700 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 381666000701 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 381666000702 PilS N terminal; Region: PilS; pfam08805 381666000703 PilS N terminal; Region: PilS; pfam08805 381666000704 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 381666000705 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 381666000706 Type II/IV secretion system protein; Region: T2SE; pfam00437 381666000707 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 381666000708 Walker A motif; other site 381666000709 ATP binding site [chemical binding]; other site 381666000710 Walker B motif; other site 381666000711 type IV pilus biogenesis protein PilP; Region: pilP_fam; TIGR03021 381666000712 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 381666000713 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 381666000714 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 381666000715 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 381666000716 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 381666000717 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666000718 catalytic residue [active] 381666000719 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 381666000720 VirB7 interaction site; other site 381666000721 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 381666000722 catalytic residue [active] 381666000723 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 381666000724 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 381666000725 VirB7 interaction site; other site 381666000726 VirB8 protein; Region: VirB8; pfam04335 381666000727 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 381666000728 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 381666000729 ATP binding site [chemical binding]; other site 381666000730 Walker A motif; other site 381666000731 hexamer interface [polypeptide binding]; other site 381666000732 Walker B motif; other site 381666000733 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 381666000734 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 381666000735 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 381666000736 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 381666000737 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 381666000738 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 381666000739 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 381666000740 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 381666000741 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 381666000742 Domain of unknown function (DUF4400); Region: DUF4400; pfam14348 381666000743 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 381666000744 Family description; Region: UvrD_C_2; pfam13538 381666000745 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 381666000746 putative DNA binding site [nucleotide binding]; other site 381666000747 Initiator Replication protein; Region: Rep_3; pfam01051 381666000748 AT-rich reion 381666000749 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 381666000750 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 381666000751 P-loop; other site 381666000752 Magnesium ion binding site [ion binding]; other site 381666000753 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 381666000754 Magnesium ion binding site [ion binding]; other site 381666000755 ParB-like nuclease domain; Region: ParB; smart00470 381666000756 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 381666000757 DNA binding site [nucleotide binding] 381666000758 Int/Topo IB signature motif; other site 381666000759 active site 381666000760 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 381666000761 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 381666000762 PemK-like protein; Region: PemK; pfam02452 381666000763 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666000764 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 381666000765 PAS domain; Region: PAS_9; pfam13426 381666000766 putative active site [active] 381666000767 heme pocket [chemical binding]; other site 381666000768 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 381666000769 cyclase homology domain; Region: CHD; cd07302 381666000770 nucleotidyl binding site; other site 381666000771 metal binding site [ion binding]; metal-binding site 381666000772 dimer interface [polypeptide binding]; other site 381666000773 Muconolactone delta-isomerase; Region: MIase; cl01992 381666000774 Methylmuconolactone methyl-isomerase; Region: MmlI; pfam09448 381666000775 benzoate transport; Region: 2A0115; TIGR00895 381666000776 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 381666000777 putative substrate translocation pore; other site 381666000778 Coenzyme A transferase; Region: CoA_trans; cl17247 381666000779 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 381666000780 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666000781 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666000782 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 381666000783 putative dimerization interface [polypeptide binding]; other site 381666000784 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 381666000785 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666000786 Muconolactone delta-isomerase; Region: MIase; cl01992 381666000787 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 381666000788 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 381666000789 octamer interface [polypeptide binding]; other site 381666000790 active site 381666000791 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 381666000792 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 381666000793 FMN binding site [chemical binding]; other site 381666000794 substrate binding site [chemical binding]; other site 381666000795 putative catalytic residue [active] 381666000796 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666000797 MoaC_like Similar to the MaoC (monoamine oxidase C) dehydratase regulatory protein but without the N-terminal PutA domain. This protein family has a hot-dog fold similar to that of (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: MaoC_like; cd03446 381666000798 homodimer interaction site [polypeptide binding]; other site 381666000799 putative active site [active] 381666000800 putative catalytic site [active] 381666000801 acyl-CoA synthetase; Validated; Region: PRK06164 381666000802 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666000803 acyl-activating enzyme (AAE) consensus motif; other site 381666000804 active site 381666000805 AMP binding site [chemical binding]; other site 381666000806 CoA binding site [chemical binding]; other site 381666000807 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 381666000808 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666000809 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 381666000810 putative AMP binding site [chemical binding]; other site 381666000811 putative active site [active] 381666000812 acyl-activating enzyme (AAE) consensus motif; other site 381666000813 putative CoA binding site [chemical binding]; other site 381666000814 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666000815 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666000816 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666000817 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666000818 putative effector binding pocket; other site 381666000819 dimerization interface [polypeptide binding]; other site 381666000820 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666000821 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666000822 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 381666000823 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 381666000824 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 381666000825 octamer interface [polypeptide binding]; other site 381666000826 active site 381666000827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666000828 Integrase core domain; Region: rve; pfam00665 381666000829 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 381666000830 Bacterial TniB protein; Region: TniB; pfam05621 381666000831 AAA domain; Region: AAA_22; pfam13401 381666000832 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 381666000833 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 381666000834 Transposase; Region: DEDD_Tnp_IS110; pfam01548 381666000835 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 381666000836 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 381666000837 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666000838 Homeodomain-like domain; Region: HTH_23; pfam13384 381666000839 Winged helix-turn helix; Region: HTH_29; pfam13551 381666000840 Homeodomain-like domain; Region: HTH_32; pfam13565 381666000841 Winged helix-turn helix; Region: HTH_33; pfam13592 381666000842 DDE superfamily endonuclease; Region: DDE_3; pfam13358 381666000843 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 381666000844 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 381666000845 intersubunit interface [polypeptide binding]; other site 381666000846 active site 381666000847 zinc binding site [ion binding]; other site 381666000848 Na+ binding site [ion binding]; other site 381666000849 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 381666000850 Phosphoglycerate kinase; Region: PGK; pfam00162 381666000851 substrate binding site [chemical binding]; other site 381666000852 hinge regions; other site 381666000853 ADP binding site [chemical binding]; other site 381666000854 catalytic site [active] 381666000855 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 381666000856 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 381666000857 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 381666000858 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 381666000859 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 381666000860 motif II; other site 381666000861 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 381666000862 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 381666000863 TPP-binding site [chemical binding]; other site 381666000864 dimer interface [polypeptide binding]; other site 381666000865 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 381666000866 PYR/PP interface [polypeptide binding]; other site 381666000867 dimer interface [polypeptide binding]; other site 381666000868 TPP binding site [chemical binding]; other site 381666000869 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 381666000870 phosphoribulokinase; Provisional; Region: PRK15453 381666000871 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 381666000872 AMP binding site [chemical binding]; other site 381666000873 metal binding site [ion binding]; metal-binding site 381666000874 active site 381666000875 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 381666000876 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 381666000877 substrate binding site [chemical binding]; other site 381666000878 hexamer interface [polypeptide binding]; other site 381666000879 metal binding site [ion binding]; metal-binding site 381666000880 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 381666000881 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 381666000882 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 381666000883 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 381666000884 Walker A motif; other site 381666000885 ATP binding site [chemical binding]; other site 381666000886 Walker B motif; other site 381666000887 arginine finger; other site 381666000888 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 381666000889 multimerization interface [polypeptide binding]; other site 381666000890 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 381666000891 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 381666000892 homodimer interface [polypeptide binding]; other site 381666000893 active site 381666000894 heterodimer interface [polypeptide binding]; other site 381666000895 catalytic residue [active] 381666000896 metal binding site [ion binding]; metal-binding site 381666000897 DnaA N-terminal domain; Region: DnaA_N; pfam11638 381666000898 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 381666000899 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 381666000900 Walker A motif; other site 381666000901 ATP binding site [chemical binding]; other site 381666000902 Walker B motif; other site 381666000903 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 381666000904 arginine finger; other site 381666000905 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 381666000906 DnaA box-binding interface [nucleotide binding]; other site 381666000907 DNA polymerase III subunit beta; Validated; Region: PRK05643 381666000908 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 381666000909 putative DNA binding surface [nucleotide binding]; other site 381666000910 dimer interface [polypeptide binding]; other site 381666000911 beta-clamp/clamp loader binding surface; other site 381666000912 beta-clamp/translesion DNA polymerase binding surface; other site 381666000913 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 381666000914 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 381666000915 ATP binding site [chemical binding]; other site 381666000916 Mg2+ binding site [ion binding]; other site 381666000917 G-X-G motif; other site 381666000918 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 381666000919 anchoring element; other site 381666000920 dimer interface [polypeptide binding]; other site 381666000921 ATP binding site [chemical binding]; other site 381666000922 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 381666000923 active site 381666000924 putative metal-binding site [ion binding]; other site 381666000925 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 381666000926 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 381666000927 HsdM N-terminal domain; Region: HsdM_N; pfam12161 381666000928 Methyltransferase domain; Region: Methyltransf_26; pfam13659 381666000929 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 381666000930 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 381666000931 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 381666000932 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 381666000933 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 381666000934 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 381666000935 Protein of unknown function DUF45; Region: DUF45; pfam01863 381666000936 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 381666000937 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 381666000938 Beta protein; Region: Beta_protein; pfam14350 381666000939 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 381666000940 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 381666000941 active site 381666000942 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 381666000943 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666000944 active site 381666000945 metal binding site [ion binding]; metal-binding site 381666000946 I-site; other site 381666000947 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 381666000948 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 381666000949 PAAR motif; Region: PAAR_motif; pfam05488 381666000950 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 381666000951 PAS domain; Region: PAS_9; pfam13426 381666000952 putative active site [active] 381666000953 heme pocket [chemical binding]; other site 381666000954 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 381666000955 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666000956 metal binding site [ion binding]; metal-binding site 381666000957 active site 381666000958 I-site; other site 381666000959 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 381666000960 Uncharacterized conserved protein [Function unknown]; Region: COG1434 381666000961 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 381666000962 putative active site [active] 381666000963 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 381666000964 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 381666000965 putative substrate translocation pore; other site 381666000966 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 381666000967 short chain dehydrogenase; Provisional; Region: PRK12829 381666000968 classical (c) SDRs; Region: SDR_c; cd05233 381666000969 NAD(P) binding site [chemical binding]; other site 381666000970 active site 381666000971 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666000972 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666000973 DNA-binding site [nucleotide binding]; DNA binding site 381666000974 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 381666000975 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666000976 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 381666000977 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666000978 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666000979 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 381666000980 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666000981 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 381666000982 active site 381666000983 iron coordination sites [ion binding]; other site 381666000984 substrate binding pocket [chemical binding]; other site 381666000985 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 381666000986 Predicted membrane protein [Function unknown]; Region: COG3766 381666000987 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 381666000988 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 381666000989 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 381666000990 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 381666000991 formimidoylglutamase; Provisional; Region: PRK13775 381666000992 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 381666000993 putative active site [active] 381666000994 putative metal binding site [ion binding]; other site 381666000995 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 381666000996 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 381666000997 Walker A/P-loop; other site 381666000998 ATP binding site [chemical binding]; other site 381666000999 Q-loop/lid; other site 381666001000 ABC transporter signature motif; other site 381666001001 Walker B; other site 381666001002 D-loop; other site 381666001003 H-loop/switch region; other site 381666001004 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666001005 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 381666001006 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 381666001007 putative PBP binding loops; other site 381666001008 dimer interface [polypeptide binding]; other site 381666001009 ABC-ATPase subunit interface; other site 381666001010 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666001011 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 381666001012 substrate binding pocket [chemical binding]; other site 381666001013 membrane-bound complex binding site; other site 381666001014 hinge residues; other site 381666001015 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666001016 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 381666001017 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666001018 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 381666001019 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 381666001020 homodimer interface [polypeptide binding]; other site 381666001021 chemical substrate binding site [chemical binding]; other site 381666001022 oligomer interface [polypeptide binding]; other site 381666001023 metal binding site [ion binding]; metal-binding site 381666001024 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 381666001025 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 381666001026 Methyltransferase domain; Region: Methyltransf_31; pfam13847 381666001027 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 381666001028 S-adenosylmethionine binding site [chemical binding]; other site 381666001029 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 381666001030 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 381666001031 DNA binding residues [nucleotide binding] 381666001032 putative dimer interface [polypeptide binding]; other site 381666001033 putative metal binding residues [ion binding]; other site 381666001034 Cache domain; Region: Cache_1; pfam02743 381666001035 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 381666001036 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 381666001037 dimerization interface [polypeptide binding]; other site 381666001038 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666001039 dimer interface [polypeptide binding]; other site 381666001040 putative CheW interface [polypeptide binding]; other site 381666001041 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 381666001042 Protein of unknown function DUF72; Region: DUF72; pfam01904 381666001043 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 381666001044 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 381666001045 ATP binding site [chemical binding]; other site 381666001046 Mg++ binding site [ion binding]; other site 381666001047 motif III; other site 381666001048 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 381666001049 nucleotide binding region [chemical binding]; other site 381666001050 ATP-binding site [chemical binding]; other site 381666001051 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 381666001052 putative RNA binding site [nucleotide binding]; other site 381666001053 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 381666001054 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666001055 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666001056 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 381666001057 FOG: CBS domain [General function prediction only]; Region: COG0517 381666001058 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 381666001059 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 381666001060 iron-sulfur cluster [ion binding]; other site 381666001061 [2Fe-2S] cluster binding site [ion binding]; other site 381666001062 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 381666001063 hydrophobic ligand binding site; other site 381666001064 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 381666001065 putative substrate translocation pore; other site 381666001066 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 381666001067 catalytic residues [active] 381666001068 dimer interface [polypeptide binding]; other site 381666001069 glutathionine S-transferase; Provisional; Region: PRK10542 381666001070 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 381666001071 C-terminal domain interface [polypeptide binding]; other site 381666001072 GSH binding site (G-site) [chemical binding]; other site 381666001073 dimer interface [polypeptide binding]; other site 381666001074 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 381666001075 dimer interface [polypeptide binding]; other site 381666001076 N-terminal domain interface [polypeptide binding]; other site 381666001077 substrate binding pocket (H-site) [chemical binding]; other site 381666001078 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666001079 dihydropyrimidinase; Provisional; Region: PRK13404 381666001080 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 381666001081 tetramer interface [polypeptide binding]; other site 381666001082 active site 381666001083 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666001084 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 381666001085 D-galactonate transporter; Region: 2A0114; TIGR00893 381666001086 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 381666001087 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666001088 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666001089 DNA-binding site [nucleotide binding]; DNA binding site 381666001090 FCD domain; Region: FCD; pfam07729 381666001091 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 381666001092 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 381666001093 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 381666001094 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 381666001095 metal binding site [ion binding]; metal-binding site 381666001096 putative dimer interface [polypeptide binding]; other site 381666001097 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 381666001098 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 381666001099 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666001100 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 381666001101 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666001102 putative substrate translocation pore; other site 381666001103 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666001104 MarR family; Region: MarR; pfam01047 381666001105 EamA-like transporter family; Region: EamA; pfam00892 381666001106 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 381666001107 EamA-like transporter family; Region: EamA; pfam00892 381666001108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666001109 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666001110 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 381666001111 active site 381666001112 phosphorylation site [posttranslational modification] 381666001113 intermolecular recognition site; other site 381666001114 dimerization interface [polypeptide binding]; other site 381666001115 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 381666001116 DNA binding site [nucleotide binding] 381666001117 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666001118 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 381666001119 active site 381666001120 phosphorylation site [posttranslational modification] 381666001121 intermolecular recognition site; other site 381666001122 dimerization interface [polypeptide binding]; other site 381666001123 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 381666001124 DNA binding site [nucleotide binding] 381666001125 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666001126 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666001127 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666001128 trimer interface [polypeptide binding]; other site 381666001129 eyelet of channel; other site 381666001130 cell division topological specificity factor MinE; Provisional; Region: PRK13989 381666001131 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 381666001132 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 381666001133 Switch I; other site 381666001134 Switch II; other site 381666001135 septum formation inhibitor; Reviewed; Region: PRK01973 381666001136 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 381666001137 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 381666001138 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 381666001139 oligomer interface [polypeptide binding]; other site 381666001140 metal binding site [ion binding]; metal-binding site 381666001141 metal binding site [ion binding]; metal-binding site 381666001142 putative Cl binding site [ion binding]; other site 381666001143 basic sphincter; other site 381666001144 hydrophobic gate; other site 381666001145 periplasmic entrance; other site 381666001146 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 381666001147 Sel1-like repeats; Region: SEL1; smart00671 381666001148 Sel1-like repeats; Region: SEL1; smart00671 381666001149 Sel1-like repeats; Region: SEL1; smart00671 381666001150 Sel1-like repeats; Region: SEL1; smart00671 381666001151 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 381666001152 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 381666001153 DNA binding residues [nucleotide binding] 381666001154 putative dimer interface [polypeptide binding]; other site 381666001155 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666001156 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666001157 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 381666001158 dimerization interface [polypeptide binding]; other site 381666001159 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666001160 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 381666001161 putative active site [active] 381666001162 Zn binding site [ion binding]; other site 381666001163 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 381666001164 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 381666001165 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 381666001166 homodimer interface [polypeptide binding]; other site 381666001167 active site 381666001168 TDP-binding site; other site 381666001169 acceptor substrate-binding pocket; other site 381666001170 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 381666001171 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666001172 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 381666001173 putative dimerization interface [polypeptide binding]; other site 381666001174 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666001175 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666001176 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666001177 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666001178 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 381666001179 substrate binding site [chemical binding]; other site 381666001180 oxyanion hole (OAH) forming residues; other site 381666001181 trimer interface [polypeptide binding]; other site 381666001182 Viral RNA dependent RNA polymerase; Region: RdRP_3; pfam00998 381666001183 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 381666001184 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666001185 FAD binding site [chemical binding]; other site 381666001186 substrate binding site [chemical binding]; other site 381666001187 catalytic base [active] 381666001188 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666001189 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666001190 active site 381666001191 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666001192 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 381666001193 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 381666001194 trmE is a tRNA modification GTPase; Region: trmE; cd04164 381666001195 G1 box; other site 381666001196 GTP/Mg2+ binding site [chemical binding]; other site 381666001197 Switch I region; other site 381666001198 G2 box; other site 381666001199 Switch II region; other site 381666001200 G3 box; other site 381666001201 G4 box; other site 381666001202 G5 box; other site 381666001203 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 381666001204 CHAD domain; Region: CHAD; pfam05235 381666001205 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 381666001206 CoenzymeA binding site [chemical binding]; other site 381666001207 subunit interaction site [polypeptide binding]; other site 381666001208 PHB binding site; other site 381666001209 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 381666001210 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666001211 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 381666001212 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 381666001213 S-adenosylmethionine binding site [chemical binding]; other site 381666001214 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 381666001215 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 381666001216 GatB domain; Region: GatB_Yqey; smart00845 381666001217 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 381666001218 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 381666001219 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 381666001220 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 381666001221 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 381666001222 rod shape-determining protein MreB; Provisional; Region: PRK13927 381666001223 MreB and similar proteins; Region: MreB_like; cd10225 381666001224 nucleotide binding site [chemical binding]; other site 381666001225 Mg binding site [ion binding]; other site 381666001226 putative protofilament interaction site [polypeptide binding]; other site 381666001227 RodZ interaction site [polypeptide binding]; other site 381666001228 rod shape-determining protein MreC; Provisional; Region: PRK13922 381666001229 rod shape-determining protein MreC; Region: MreC; pfam04085 381666001230 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 381666001231 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 381666001232 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 381666001233 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 381666001234 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 381666001235 Protein of unknown function, DUF484; Region: DUF484; cl17449 381666001236 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666001237 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 381666001238 active site 381666001239 DNA binding site [nucleotide binding] 381666001240 Int/Topo IB signature motif; other site 381666001241 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666001242 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666001243 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 381666001244 dimerization interface [polypeptide binding]; other site 381666001245 substrate binding pocket [chemical binding]; other site 381666001246 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 381666001247 lipoate-protein ligase B; Provisional; Region: PRK14343 381666001248 lipoyl synthase; Provisional; Region: PRK05481 381666001249 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 381666001250 FeS/SAM binding site; other site 381666001251 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 381666001252 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 381666001253 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 381666001254 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 381666001255 putative active site [active] 381666001256 Predicted membrane protein [Function unknown]; Region: COG3819 381666001257 Predicted membrane protein [Function unknown]; Region: COG3817 381666001258 Protein of unknown function (DUF979); Region: DUF979; pfam06166 381666001259 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 381666001260 putative substrate binding pocket [chemical binding]; other site 381666001261 AC domain interface; other site 381666001262 catalytic triad [active] 381666001263 AB domain interface; other site 381666001264 interchain disulfide; other site 381666001265 Predicted integral membrane protein [Function unknown]; Region: COG5652 381666001266 Protein of unknown function (DUF330); Region: DUF330; cl01135 381666001267 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 381666001268 mce related protein; Region: MCE; pfam02470 381666001269 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 381666001270 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 381666001271 Walker A/P-loop; other site 381666001272 ATP binding site [chemical binding]; other site 381666001273 Q-loop/lid; other site 381666001274 ABC transporter signature motif; other site 381666001275 Walker B; other site 381666001276 D-loop; other site 381666001277 H-loop/switch region; other site 381666001278 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 381666001279 Permease; Region: Permease; pfam02405 381666001280 biotin--protein ligase; Provisional; Region: PRK06955 381666001281 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 381666001282 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 381666001283 pantothenate kinase; Reviewed; Region: PRK13328 381666001284 Sporulation related domain; Region: SPOR; pfam05036 381666001285 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 381666001286 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 381666001287 active site 381666001288 nucleotide binding site [chemical binding]; other site 381666001289 HIGH motif; other site 381666001290 KMSKS motif; other site 381666001291 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 381666001292 dinuclear metal binding motif [ion binding]; other site 381666001293 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 381666001294 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 381666001295 active site 381666001296 nucleophile elbow; other site 381666001297 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666001298 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 381666001299 substrate binding site [chemical binding]; other site 381666001300 oxyanion hole (OAH) forming residues; other site 381666001301 trimer interface [polypeptide binding]; other site 381666001302 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 381666001303 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 381666001304 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 381666001305 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666001306 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666001307 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666001308 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666001309 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 381666001310 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 381666001311 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 381666001312 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 381666001313 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 381666001314 active site residue [active] 381666001315 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 381666001316 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 381666001317 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 381666001318 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 381666001319 substrate binding pocket [chemical binding]; other site 381666001320 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 381666001321 B12 binding site [chemical binding]; other site 381666001322 cobalt ligand [ion binding]; other site 381666001323 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 381666001324 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666001325 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 381666001326 active site 381666001327 phosphorylation site [posttranslational modification] 381666001328 intermolecular recognition site; other site 381666001329 dimerization interface [polypeptide binding]; other site 381666001330 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 381666001331 DNA binding residues [nucleotide binding] 381666001332 dimerization interface [polypeptide binding]; other site 381666001333 Response regulator receiver domain; Region: Response_reg; pfam00072 381666001334 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 381666001335 active site 381666001336 phosphorylation site [posttranslational modification] 381666001337 intermolecular recognition site; other site 381666001338 dimerization interface [polypeptide binding]; other site 381666001339 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG5278 381666001340 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 381666001341 Histidine kinase; Region: HisKA_3; pfam07730 381666001342 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 381666001343 ATP binding site [chemical binding]; other site 381666001344 Mg2+ binding site [ion binding]; other site 381666001345 G-X-G motif; other site 381666001346 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 381666001347 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 381666001348 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 381666001349 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 381666001350 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 381666001351 active site 381666001352 HIGH motif; other site 381666001353 KMSK motif region; other site 381666001354 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 381666001355 tRNA binding surface [nucleotide binding]; other site 381666001356 anticodon binding site; other site 381666001357 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 381666001358 Sporulation related domain; Region: SPOR; pfam05036 381666001359 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 381666001360 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 381666001361 catalytic residues [active] 381666001362 hinge region; other site 381666001363 alpha helical domain; other site 381666001364 short chain dehydrogenase; Provisional; Region: PRK07024 381666001365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666001366 NAD(P) binding site [chemical binding]; other site 381666001367 active site 381666001368 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 381666001369 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 381666001370 intersubunit interface [polypeptide binding]; other site 381666001371 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 381666001372 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 381666001373 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 381666001374 DNA binding residues [nucleotide binding] 381666001375 putative dimer interface [polypeptide binding]; other site 381666001376 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 381666001377 CoenzymeA binding site [chemical binding]; other site 381666001378 subunit interaction site [polypeptide binding]; other site 381666001379 PHB binding site; other site 381666001380 isovaleryl-CoA dehydrogenase; Region: PLN02519 381666001381 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 381666001382 substrate binding site [chemical binding]; other site 381666001383 FAD binding site [chemical binding]; other site 381666001384 catalytic base [active] 381666001385 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 381666001386 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 381666001387 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 381666001388 active site clefts [active] 381666001389 zinc binding site [ion binding]; other site 381666001390 dimer interface [polypeptide binding]; other site 381666001391 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 381666001392 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 381666001393 dimer interface [polypeptide binding]; other site 381666001394 active site 381666001395 C factor cell-cell signaling protein; Provisional; Region: PRK09009 381666001396 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 381666001397 NADP binding site [chemical binding]; other site 381666001398 homodimer interface [polypeptide binding]; other site 381666001399 active site 381666001400 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666001401 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666001402 active site 381666001403 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 381666001404 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 381666001405 putative catalytic residue [active] 381666001406 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 381666001407 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 381666001408 active site 381666001409 motif I; other site 381666001410 motif II; other site 381666001411 hypothetical protein; Provisional; Region: PRK01842 381666001412 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 381666001413 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666001414 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 381666001415 putative C-terminal domain interface [polypeptide binding]; other site 381666001416 putative GSH binding site (G-site) [chemical binding]; other site 381666001417 putative dimer interface [polypeptide binding]; other site 381666001418 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 381666001419 N-terminal domain interface [polypeptide binding]; other site 381666001420 dimer interface [polypeptide binding]; other site 381666001421 substrate binding pocket (H-site) [chemical binding]; other site 381666001422 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 381666001423 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 381666001424 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 381666001425 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 381666001426 enoyl-CoA hydratase; Provisional; Region: PRK05995 381666001427 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 381666001428 substrate binding site [chemical binding]; other site 381666001429 oxyanion hole (OAH) forming residues; other site 381666001430 trimer interface [polypeptide binding]; other site 381666001431 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 381666001432 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 381666001433 inhibitor-cofactor binding pocket; inhibition site 381666001434 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666001435 catalytic residue [active] 381666001436 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 381666001437 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 381666001438 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666001439 catalytic residue [active] 381666001440 AAA domain; Region: AAA_26; pfam13500 381666001441 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 381666001442 biotin synthase; Region: bioB; TIGR00433 381666001443 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 381666001444 FeS/SAM binding site; other site 381666001445 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 381666001446 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 381666001447 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666001448 ATP-grasp domain; Region: ATP-grasp_4; cl17255 381666001449 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 381666001450 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 381666001451 carboxyltransferase (CT) interaction site; other site 381666001452 biotinylation site [posttranslational modification]; other site 381666001453 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 381666001454 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 381666001455 putative ligand binding site [chemical binding]; other site 381666001456 NAD binding site [chemical binding]; other site 381666001457 dimerization interface [polypeptide binding]; other site 381666001458 catalytic site [active] 381666001459 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 381666001460 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 381666001461 active site 381666001462 catalytic residues [active] 381666001463 metal binding site [ion binding]; metal-binding site 381666001464 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 381666001465 putative deacylase active site [active] 381666001466 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 381666001467 active site 1 [active] 381666001468 active site 2 [active] 381666001469 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 381666001470 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 381666001471 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 381666001472 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 381666001473 N-terminal plug; other site 381666001474 ligand-binding site [chemical binding]; other site 381666001475 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 381666001476 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 381666001477 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 381666001478 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 381666001479 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 381666001480 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 381666001481 P-loop, Walker A motif; other site 381666001482 Base recognition motif; other site 381666001483 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 381666001484 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 381666001485 metal binding site 2 [ion binding]; metal-binding site 381666001486 putative DNA binding helix; other site 381666001487 metal binding site 1 [ion binding]; metal-binding site 381666001488 dimer interface [polypeptide binding]; other site 381666001489 structural Zn2+ binding site [ion binding]; other site 381666001490 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666001491 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666001492 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 381666001493 active site 381666001494 HslU subunit interaction site [polypeptide binding]; other site 381666001495 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 381666001496 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 381666001497 Walker A motif; other site 381666001498 ATP binding site [chemical binding]; other site 381666001499 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 381666001500 Walker B motif; other site 381666001501 arginine finger; other site 381666001502 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 381666001503 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 381666001504 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 381666001505 active site 381666001506 phosphorylation site [posttranslational modification] 381666001507 intermolecular recognition site; other site 381666001508 dimerization interface [polypeptide binding]; other site 381666001509 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 381666001510 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666001511 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 381666001512 ATP binding site [chemical binding]; other site 381666001513 Mg2+ binding site [ion binding]; other site 381666001514 G-X-G motif; other site 381666001515 Protein of unknown function (DUF461); Region: DUF461; pfam04314 381666001516 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 381666001517 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666001518 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 381666001519 putative substrate binding pocket [chemical binding]; other site 381666001520 putative dimerization interface [polypeptide binding]; other site 381666001521 Protein of unknown function, DUF606; Region: DUF606; pfam04657 381666001522 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 381666001523 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 381666001524 feedback inhibition sensing region; other site 381666001525 homohexameric interface [polypeptide binding]; other site 381666001526 nucleotide binding site [chemical binding]; other site 381666001527 N-acetyl-L-glutamate binding site [chemical binding]; other site 381666001528 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 381666001529 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 381666001530 division inhibitor protein; Provisional; Region: slmA; PRK09480 381666001531 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666001532 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 381666001533 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 381666001534 Methyltransferase domain; Region: Methyltransf_23; pfam13489 381666001535 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 381666001536 S-adenosylmethionine binding site [chemical binding]; other site 381666001537 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_22; cd08359 381666001538 putative dimer interface [polypeptide binding]; other site 381666001539 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666001540 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666001541 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666001542 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666001543 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666001544 putative effector binding pocket; other site 381666001545 dimerization interface [polypeptide binding]; other site 381666001546 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 381666001547 EamA-like transporter family; Region: EamA; pfam00892 381666001548 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 381666001549 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 381666001550 active site 1 [active] 381666001551 active site 2 [active] 381666001552 muropeptide transporter; Reviewed; Region: ampG; PRK11902 381666001553 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 381666001554 putative substrate translocation pore; other site 381666001555 Peptidase family M48; Region: Peptidase_M48; pfam01435 381666001556 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 381666001557 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 381666001558 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 381666001559 peptide binding site [polypeptide binding]; other site 381666001560 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 381666001561 toxin interface [polypeptide binding]; other site 381666001562 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 381666001563 Zn binding site [ion binding]; other site 381666001564 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 381666001565 non-specific DNA binding site [nucleotide binding]; other site 381666001566 salt bridge; other site 381666001567 sequence-specific DNA binding site [nucleotide binding]; other site 381666001568 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 381666001569 putative active site [active] 381666001570 putative catalytic site [active] 381666001571 putative DNA binding site [nucleotide binding]; other site 381666001572 putative phosphate binding site [ion binding]; other site 381666001573 metal binding site A [ion binding]; metal-binding site 381666001574 putative AP binding site [nucleotide binding]; other site 381666001575 putative metal binding site B [ion binding]; other site 381666001576 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666001577 active site 381666001578 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 381666001579 nucleophile elbow; other site 381666001580 Patatin phospholipase; Region: DUF3734; pfam12536 381666001581 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 381666001582 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 381666001583 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 381666001584 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 381666001585 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 381666001586 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 381666001587 putative acyl-acceptor binding pocket; other site 381666001588 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 381666001589 putative acyl-acceptor binding pocket; other site 381666001590 S-adenosylmethionine synthetase; Validated; Region: PRK05250 381666001591 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 381666001592 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 381666001593 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 381666001594 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 381666001595 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 381666001596 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 381666001597 NAD(P) binding site [chemical binding]; other site 381666001598 catalytic residues [active] 381666001599 choline dehydrogenase; Validated; Region: PRK02106 381666001600 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666001601 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 381666001602 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 381666001603 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666001604 active site 381666001605 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 381666001606 ThiC-associated domain; Region: ThiC-associated; pfam13667 381666001607 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 381666001608 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 381666001609 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 381666001610 thiS-thiF/thiG interaction site; other site 381666001611 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 381666001612 ThiS interaction site; other site 381666001613 putative active site [active] 381666001614 tetramer interface [polypeptide binding]; other site 381666001615 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 381666001616 thiamine phosphate binding site [chemical binding]; other site 381666001617 active site 381666001618 pyrophosphate binding site [ion binding]; other site 381666001619 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 381666001620 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666001621 Coenzyme A binding pocket [chemical binding]; other site 381666001622 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 381666001623 CoenzymeA binding site [chemical binding]; other site 381666001624 subunit interaction site [polypeptide binding]; other site 381666001625 PHB binding site; other site 381666001626 PGDYG protein; Region: PGDYG; pfam14083 381666001627 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 381666001628 dimer interface [polypeptide binding]; other site 381666001629 substrate binding site [chemical binding]; other site 381666001630 ATP binding site [chemical binding]; other site 381666001631 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 381666001632 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 381666001633 homotetramer interface [polypeptide binding]; other site 381666001634 ligand binding site [chemical binding]; other site 381666001635 catalytic site [active] 381666001636 NAD binding site [chemical binding]; other site 381666001637 Predicted membrane protein [Function unknown]; Region: COG1950 381666001638 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 381666001639 FAD binding site [chemical binding]; other site 381666001640 TfoX N-terminal domain; Region: TfoX_N; pfam04993 381666001641 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 381666001642 Uncharacterized conserved protein [Function unknown]; Region: COG1656 381666001643 Protein of unknown function DUF82; Region: DUF82; pfam01927 381666001644 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 381666001645 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 381666001646 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 381666001647 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666001648 catalytic residue [active] 381666001649 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 381666001650 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 381666001651 putative NAD(P) binding site [chemical binding]; other site 381666001652 active site 381666001653 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 381666001654 putative C-terminal domain interface [polypeptide binding]; other site 381666001655 putative GSH binding site (G-site) [chemical binding]; other site 381666001656 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666001657 putative dimer interface [polypeptide binding]; other site 381666001658 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 381666001659 putative substrate binding pocket (H-site) [chemical binding]; other site 381666001660 putative N-terminal domain interface [polypeptide binding]; other site 381666001661 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 381666001662 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 381666001663 active site 381666001664 NTP binding site [chemical binding]; other site 381666001665 metal binding triad [ion binding]; metal-binding site 381666001666 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 381666001667 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 381666001668 Zn2+ binding site [ion binding]; other site 381666001669 Mg2+ binding site [ion binding]; other site 381666001670 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 381666001671 Ligand Binding Site [chemical binding]; other site 381666001672 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 381666001673 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 381666001674 Uncharacterized conserved protein [Function unknown]; Region: COG1565 381666001675 short chain dehydrogenase; Provisional; Region: PRK09134 381666001676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666001677 NAD(P) binding site [chemical binding]; other site 381666001678 active site 381666001679 Dihydroneopterin aldolase; Region: FolB; smart00905 381666001680 active site 381666001681 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 381666001682 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 381666001683 Ligand Binding Site [chemical binding]; other site 381666001684 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 381666001685 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 381666001686 Substrate binding site; other site 381666001687 Mg++ binding site; other site 381666001688 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 381666001689 active site 381666001690 substrate binding site [chemical binding]; other site 381666001691 CoA binding site [chemical binding]; other site 381666001692 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 381666001693 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 381666001694 glutaminase active site [active] 381666001695 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 381666001696 dimer interface [polypeptide binding]; other site 381666001697 active site 381666001698 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 381666001699 dimer interface [polypeptide binding]; other site 381666001700 active site 381666001701 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666001702 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666001703 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 381666001704 dimerization interface [polypeptide binding]; other site 381666001705 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666001706 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 381666001707 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 381666001708 heme binding site [chemical binding]; other site 381666001709 ferroxidase pore; other site 381666001710 ferroxidase diiron center [ion binding]; other site 381666001711 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666001712 Coenzyme A binding pocket [chemical binding]; other site 381666001713 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 381666001714 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 381666001715 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666001716 DNA-binding site [nucleotide binding]; DNA binding site 381666001717 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 381666001718 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666001719 homodimer interface [polypeptide binding]; other site 381666001720 catalytic residue [active] 381666001721 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 381666001722 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 381666001723 inhibitor-cofactor binding pocket; inhibition site 381666001724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666001725 catalytic residue [active] 381666001726 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 381666001727 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 381666001728 tetrameric interface [polypeptide binding]; other site 381666001729 NAD binding site [chemical binding]; other site 381666001730 catalytic residues [active] 381666001731 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666001732 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_5; cd07238 381666001733 dimer interface [polypeptide binding]; other site 381666001734 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 381666001735 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 381666001736 conserved cys residue [active] 381666001737 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666001738 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 381666001739 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666001740 putative substrate translocation pore; other site 381666001741 amino acid transporter; Region: 2A0306; TIGR00909 381666001742 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 381666001743 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 381666001744 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666001745 DNA-binding site [nucleotide binding]; DNA binding site 381666001746 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 381666001747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666001748 homodimer interface [polypeptide binding]; other site 381666001749 catalytic residue [active] 381666001750 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 381666001751 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 381666001752 B12 binding site [chemical binding]; other site 381666001753 cobalt ligand [ion binding]; other site 381666001754 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 381666001755 Walker A; other site 381666001756 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, unknown subfamily 1; composed of uncharacterized bacterial proteins containing a C-terminal MCM domain. MCM catalyzes the isomerization of methylmalonyl-CoA to succinyl-CoA. The...; Region: MM_CoA_mutase_1; cd03678 381666001757 putative active site [active] 381666001758 putative substrate binding site [chemical binding]; other site 381666001759 putative coenzyme B12 binding site [chemical binding]; other site 381666001760 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 381666001761 HIT family signature motif; other site 381666001762 catalytic residue [active] 381666001763 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 381666001764 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 381666001765 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666001766 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 381666001767 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 381666001768 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666001769 ligand binding site [chemical binding]; other site 381666001770 flexible hinge region; other site 381666001771 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 381666001772 putative switch regulator; other site 381666001773 non-specific DNA interactions [nucleotide binding]; other site 381666001774 DNA binding site [nucleotide binding] 381666001775 sequence specific DNA binding site [nucleotide binding]; other site 381666001776 putative cAMP binding site [chemical binding]; other site 381666001777 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 381666001778 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 381666001779 acyl-activating enzyme (AAE) consensus motif; other site 381666001780 putative AMP binding site [chemical binding]; other site 381666001781 putative active site [active] 381666001782 putative CoA binding site [chemical binding]; other site 381666001783 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666001784 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 381666001785 Walker A/P-loop; other site 381666001786 ATP binding site [chemical binding]; other site 381666001787 Q-loop/lid; other site 381666001788 ABC transporter signature motif; other site 381666001789 Walker B; other site 381666001790 D-loop; other site 381666001791 H-loop/switch region; other site 381666001792 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666001793 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 381666001794 TM-ABC transporter signature motif; other site 381666001795 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 381666001796 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 381666001797 TM-ABC transporter signature motif; other site 381666001798 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 381666001799 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666001800 putative ligand binding site [chemical binding]; other site 381666001801 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666001802 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 381666001803 Walker A/P-loop; other site 381666001804 ATP binding site [chemical binding]; other site 381666001805 Q-loop/lid; other site 381666001806 ABC transporter signature motif; other site 381666001807 Walker B; other site 381666001808 D-loop; other site 381666001809 H-loop/switch region; other site 381666001810 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666001811 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 381666001812 acyl-activating enzyme (AAE) consensus motif; other site 381666001813 AMP binding site [chemical binding]; other site 381666001814 active site 381666001815 CoA binding site [chemical binding]; other site 381666001816 Protein of unknown function (DUF454); Region: DUF454; cl01063 381666001817 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 381666001818 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 381666001819 FMN binding site [chemical binding]; other site 381666001820 substrate binding site [chemical binding]; other site 381666001821 putative catalytic residue [active] 381666001822 sensory histidine kinase CreC; Provisional; Region: PRK11100 381666001823 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 381666001824 dimerization interface [polypeptide binding]; other site 381666001825 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 381666001826 dimer interface [polypeptide binding]; other site 381666001827 phosphorylation site [posttranslational modification] 381666001828 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 381666001829 ATP binding site [chemical binding]; other site 381666001830 Mg2+ binding site [ion binding]; other site 381666001831 G-X-G motif; other site 381666001832 DNA-binding response regulator CreB; Provisional; Region: PRK11083 381666001833 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 381666001834 active site 381666001835 phosphorylation site [posttranslational modification] 381666001836 intermolecular recognition site; other site 381666001837 dimerization interface [polypeptide binding]; other site 381666001838 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 381666001839 DNA binding site [nucleotide binding] 381666001840 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 381666001841 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 381666001842 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 381666001843 active site 381666001844 phosphorylation site [posttranslational modification] 381666001845 intermolecular recognition site; other site 381666001846 dimerization interface [polypeptide binding]; other site 381666001847 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 381666001848 Walker A motif; other site 381666001849 ATP binding site [chemical binding]; other site 381666001850 Walker B motif; other site 381666001851 arginine finger; other site 381666001852 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 381666001853 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 381666001854 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 381666001855 dimer interface [polypeptide binding]; other site 381666001856 phosphorylation site [posttranslational modification] 381666001857 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 381666001858 ATP binding site [chemical binding]; other site 381666001859 G-X-G motif; other site 381666001860 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 381666001861 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 381666001862 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 381666001863 dimer interface [polypeptide binding]; other site 381666001864 [2Fe-2S] cluster binding site [ion binding]; other site 381666001865 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 381666001866 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 381666001867 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 381666001868 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 381666001869 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 381666001870 hypothetical protein; Provisional; Region: PRK02047 381666001871 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 381666001872 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 381666001873 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 381666001874 putative RNA binding site [nucleotide binding]; other site 381666001875 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 381666001876 S-adenosylmethionine binding site [chemical binding]; other site 381666001877 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 381666001878 Part of AAA domain; Region: AAA_19; pfam13245 381666001879 Family description; Region: UvrD_C_2; pfam13538 381666001880 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 381666001881 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 381666001882 catalytic residues [active] 381666001883 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 381666001884 catalytic residues [active] 381666001885 LysE type translocator; Region: LysE; cl00565 381666001886 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666001887 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666001888 DNA-binding site [nucleotide binding]; DNA binding site 381666001889 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 381666001890 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 381666001891 HPr interaction site; other site 381666001892 glycerol kinase (GK) interaction site [polypeptide binding]; other site 381666001893 active site 381666001894 phosphorylation site [posttranslational modification] 381666001895 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 381666001896 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 381666001897 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 381666001898 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 381666001899 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 381666001900 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 381666001901 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 381666001902 active site turn [active] 381666001903 phosphorylation site [posttranslational modification] 381666001904 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666001905 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666001906 trimer interface [polypeptide binding]; other site 381666001907 eyelet of channel; other site 381666001908 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 381666001909 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 381666001910 active site 381666001911 dimer interface [polypeptide binding]; other site 381666001912 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 381666001913 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 381666001914 dimer interface [polypeptide binding]; other site 381666001915 active site 381666001916 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 381666001917 dimer interface [polypeptide binding]; other site 381666001918 active site 381666001919 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 381666001920 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 381666001921 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 381666001922 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 381666001923 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 381666001924 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 381666001925 Walker A motif; other site 381666001926 ATP binding site [chemical binding]; other site 381666001927 Walker B motif; other site 381666001928 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 381666001929 Membrane fusogenic activity; Region: BMFP; pfam04380 381666001930 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; pfam09694 381666001931 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 381666001932 Nitrogen regulatory protein P-II; Region: P-II; smart00938 381666001933 ammonium transporter; Provisional; Region: PRK10666 381666001934 Glutamate-cysteine ligase; Region: GshA; pfam08886 381666001935 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 381666001936 glutathione synthetase; Provisional; Region: PRK05246 381666001937 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 381666001938 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 381666001939 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 381666001940 active pocket/dimerization site; other site 381666001941 active site 381666001942 phosphorylation site [posttranslational modification] 381666001943 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 381666001944 dimerization domain swap beta strand [polypeptide binding]; other site 381666001945 regulatory protein interface [polypeptide binding]; other site 381666001946 active site 381666001947 regulatory phosphorylation site [posttranslational modification]; other site 381666001948 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 381666001949 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 381666001950 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 381666001951 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 381666001952 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 381666001953 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 381666001954 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 381666001955 heme binding site [chemical binding]; other site 381666001956 ferroxidase pore; other site 381666001957 ferroxidase diiron center [ion binding]; other site 381666001958 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 381666001959 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 381666001960 active site residue [active] 381666001961 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 381666001962 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 381666001963 ATP binding site [chemical binding]; other site 381666001964 substrate interface [chemical binding]; other site 381666001965 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 381666001966 C-terminal peptidase (prc); Region: prc; TIGR00225 381666001967 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 381666001968 protein binding site [polypeptide binding]; other site 381666001969 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 381666001970 Catalytic dyad [active] 381666001971 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 381666001972 catalytic core [active] 381666001973 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 381666001974 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 381666001975 active site residue [active] 381666001976 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 381666001977 GSH binding site [chemical binding]; other site 381666001978 catalytic residues [active] 381666001979 preprotein translocase subunit SecB; Validated; Region: PRK05751 381666001980 SecA binding site; other site 381666001981 Preprotein binding site; other site 381666001982 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 381666001983 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 381666001984 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 381666001985 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666001986 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 381666001987 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 381666001988 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666001989 active site 381666001990 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 381666001991 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 381666001992 S-adenosylmethionine binding site [chemical binding]; other site 381666001993 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 381666001994 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 381666001995 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 381666001996 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 381666001997 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 381666001998 Cytochrome c; Region: Cytochrom_C; pfam00034 381666001999 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 381666002000 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 381666002001 Subunit I/III interface [polypeptide binding]; other site 381666002002 D-pathway; other site 381666002003 Subunit I/VIIc interface [polypeptide binding]; other site 381666002004 Subunit I/IV interface [polypeptide binding]; other site 381666002005 Subunit I/II interface [polypeptide binding]; other site 381666002006 Low-spin heme (heme a) binding site [chemical binding]; other site 381666002007 Subunit I/VIIa interface [polypeptide binding]; other site 381666002008 Subunit I/VIa interface [polypeptide binding]; other site 381666002009 Dimer interface; other site 381666002010 Putative water exit pathway; other site 381666002011 Binuclear center (heme a3/CuB) [ion binding]; other site 381666002012 K-pathway; other site 381666002013 Subunit I/Vb interface [polypeptide binding]; other site 381666002014 Putative proton exit pathway; other site 381666002015 Subunit I/VIb interface; other site 381666002016 Subunit I/VIc interface [polypeptide binding]; other site 381666002017 Electron transfer pathway; other site 381666002018 Subunit I/VIIIb interface [polypeptide binding]; other site 381666002019 Subunit I/VIIb interface [polypeptide binding]; other site 381666002020 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 381666002021 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 381666002022 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 381666002023 Subunit III/VIIa interface [polypeptide binding]; other site 381666002024 Phospholipid binding site [chemical binding]; other site 381666002025 Subunit I/III interface [polypeptide binding]; other site 381666002026 Subunit III/VIb interface [polypeptide binding]; other site 381666002027 Subunit III/VIa interface; other site 381666002028 Subunit III/Vb interface [polypeptide binding]; other site 381666002029 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 381666002030 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 381666002031 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 381666002032 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 381666002033 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 381666002034 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 381666002035 UbiA prenyltransferase family; Region: UbiA; pfam01040 381666002036 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 381666002037 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 381666002038 Cu(I) binding site [ion binding]; other site 381666002039 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 381666002040 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666002041 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 381666002042 DNA binding residues [nucleotide binding] 381666002043 Pirin-related protein [General function prediction only]; Region: COG1741 381666002044 Pirin; Region: Pirin; pfam02678 381666002045 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 381666002046 glycosyl transferase family protein; Provisional; Region: PRK08136 381666002047 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 381666002048 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 381666002049 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 381666002050 Walker A/P-loop; other site 381666002051 ATP binding site [chemical binding]; other site 381666002052 Q-loop/lid; other site 381666002053 ABC transporter signature motif; other site 381666002054 Walker B; other site 381666002055 D-loop; other site 381666002056 H-loop/switch region; other site 381666002057 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 381666002058 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 381666002059 dimer interface [polypeptide binding]; other site 381666002060 conserved gate region; other site 381666002061 putative PBP binding loops; other site 381666002062 ABC-ATPase subunit interface; other site 381666002063 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 381666002064 NMT1-like family; Region: NMT1_2; pfam13379 381666002065 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 381666002066 ANTAR domain; Region: ANTAR; pfam03861 381666002067 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 381666002068 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 381666002069 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 381666002070 maleylacetoacetate isomerase; Region: maiA; TIGR01262 381666002071 C-terminal domain interface [polypeptide binding]; other site 381666002072 GSH binding site (G-site) [chemical binding]; other site 381666002073 putative dimer interface [polypeptide binding]; other site 381666002074 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 381666002075 dimer interface [polypeptide binding]; other site 381666002076 N-terminal domain interface [polypeptide binding]; other site 381666002077 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 381666002078 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 381666002079 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 381666002080 P loop; other site 381666002081 GTP binding site [chemical binding]; other site 381666002082 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 381666002083 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 381666002084 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 381666002085 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 381666002086 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 381666002087 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 381666002088 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 381666002089 S-adenosylmethionine binding site [chemical binding]; other site 381666002090 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 381666002091 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 381666002092 active site 381666002093 (T/H)XGH motif; other site 381666002094 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 381666002095 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 381666002096 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 381666002097 putative active site [active] 381666002098 catalytic residue [active] 381666002099 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 381666002100 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 381666002101 5S rRNA interface [nucleotide binding]; other site 381666002102 CTC domain interface [polypeptide binding]; other site 381666002103 L16 interface [polypeptide binding]; other site 381666002104 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 381666002105 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 381666002106 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666002107 active site 381666002108 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 381666002109 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 381666002110 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 381666002111 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 381666002112 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 381666002113 TPR motif; other site 381666002114 binding surface 381666002115 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 381666002116 binding surface 381666002117 TPR motif; other site 381666002118 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 381666002119 binding surface 381666002120 TPR motif; other site 381666002121 TPR repeat; Region: TPR_11; pfam13414 381666002122 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 381666002123 binding surface 381666002124 TPR motif; other site 381666002125 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 381666002126 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 381666002127 DNA binding site [nucleotide binding] 381666002128 catalytic residue [active] 381666002129 H2TH interface [polypeptide binding]; other site 381666002130 putative catalytic residues [active] 381666002131 turnover-facilitating residue; other site 381666002132 intercalation triad [nucleotide binding]; other site 381666002133 8OG recognition residue [nucleotide binding]; other site 381666002134 putative reading head residues; other site 381666002135 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 381666002136 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 381666002137 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 381666002138 Dynamin family; Region: Dynamin_N; pfam00350 381666002139 G1 box; other site 381666002140 GTP/Mg2+ binding site [chemical binding]; other site 381666002141 G2 box; other site 381666002142 Switch I region; other site 381666002143 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 381666002144 G3 box; other site 381666002145 Switch II region; other site 381666002146 GTP/Mg2+ binding site [chemical binding]; other site 381666002147 G4 box; other site 381666002148 G5 box; other site 381666002149 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 381666002150 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 381666002151 minor groove reading motif; other site 381666002152 helix-hairpin-helix signature motif; other site 381666002153 substrate binding pocket [chemical binding]; other site 381666002154 active site 381666002155 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 381666002156 DNA binding and oxoG recognition site [nucleotide binding] 381666002157 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 381666002158 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 381666002159 psiF repeat; Region: PsiF_repeat; pfam07769 381666002160 HPr kinase/phosphorylase; Provisional; Region: PRK05428 381666002161 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 381666002162 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 381666002163 Hpr binding site; other site 381666002164 active site 381666002165 homohexamer subunit interaction site [polypeptide binding]; other site 381666002166 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 381666002167 active site 381666002168 phosphorylation site [posttranslational modification] 381666002169 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 381666002170 30S subunit binding site; other site 381666002171 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 381666002172 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 381666002173 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 381666002174 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 381666002175 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 381666002176 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 381666002177 Walker A/P-loop; other site 381666002178 ATP binding site [chemical binding]; other site 381666002179 Q-loop/lid; other site 381666002180 ABC transporter signature motif; other site 381666002181 Walker B; other site 381666002182 D-loop; other site 381666002183 H-loop/switch region; other site 381666002184 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 381666002185 OstA-like protein; Region: OstA; pfam03968 381666002186 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 381666002187 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 381666002188 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 381666002189 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 381666002190 putative active site [active] 381666002191 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 381666002192 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 381666002193 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 381666002194 TrkA-N domain; Region: TrkA_N; pfam02254 381666002195 TrkA-C domain; Region: TrkA_C; pfam02080 381666002196 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 381666002197 intracellular protease, PfpI family; Region: PfpI; TIGR01382 381666002198 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 381666002199 conserved cys residue [active] 381666002200 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666002201 active site 381666002202 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 381666002203 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 381666002204 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 381666002205 PhoU domain; Region: PhoU; pfam01895 381666002206 PhoU domain; Region: PhoU; pfam01895 381666002207 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 381666002208 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 381666002209 catalytic core [active] 381666002210 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 381666002211 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 381666002212 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 381666002213 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 381666002214 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 381666002215 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666002216 putative substrate translocation pore; other site 381666002217 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 381666002218 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 381666002219 dimer interface [polypeptide binding]; other site 381666002220 ssDNA binding site [nucleotide binding]; other site 381666002221 tetramer (dimer of dimers) interface [polypeptide binding]; other site 381666002222 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666002223 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666002224 eyelet of channel; other site 381666002225 trimer interface [polypeptide binding]; other site 381666002226 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666002227 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 381666002228 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 381666002229 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666002230 metal binding site [ion binding]; metal-binding site 381666002231 active site 381666002232 I-site; other site 381666002233 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 381666002234 Ion channel; Region: Ion_trans_2; pfam07885 381666002235 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 381666002236 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 381666002237 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 381666002238 putative active site [active] 381666002239 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 381666002240 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 381666002241 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 381666002242 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 381666002243 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 381666002244 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 381666002245 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666002246 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 381666002247 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 381666002248 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 381666002249 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 381666002250 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 381666002251 Walker A/P-loop; other site 381666002252 ATP binding site [chemical binding]; other site 381666002253 Q-loop/lid; other site 381666002254 ABC transporter signature motif; other site 381666002255 Walker B; other site 381666002256 D-loop; other site 381666002257 H-loop/switch region; other site 381666002258 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666002259 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666002260 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666002261 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666002262 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 381666002263 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 381666002264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 381666002265 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 381666002266 threonine dehydratase; Reviewed; Region: PRK09224 381666002267 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 381666002268 tetramer interface [polypeptide binding]; other site 381666002269 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666002270 catalytic residue [active] 381666002271 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 381666002272 putative Ile/Val binding site [chemical binding]; other site 381666002273 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 381666002274 putative Ile/Val binding site [chemical binding]; other site 381666002275 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 381666002276 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 381666002277 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 381666002278 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 381666002279 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 381666002280 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 381666002281 active site 381666002282 homotetramer interface [polypeptide binding]; other site 381666002283 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 381666002284 aromatic arch; other site 381666002285 DCoH dimer interaction site [polypeptide binding]; other site 381666002286 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 381666002287 DCoH tetramer interaction site [polypeptide binding]; other site 381666002288 substrate binding site [chemical binding]; other site 381666002289 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 381666002290 metal-binding site 381666002291 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 381666002292 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 381666002293 XdhC Rossmann domain; Region: XdhC_C; pfam13478 381666002294 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 381666002295 putative hydrophobic ligand binding site [chemical binding]; other site 381666002296 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 381666002297 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 381666002298 metal ion-dependent adhesion site (MIDAS); other site 381666002299 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 381666002300 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 381666002301 Walker A motif; other site 381666002302 ATP binding site [chemical binding]; other site 381666002303 Walker B motif; other site 381666002304 arginine finger; other site 381666002305 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 381666002306 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 381666002307 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666002308 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 381666002309 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666002310 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666002311 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 381666002312 catalytic loop [active] 381666002313 iron binding site [ion binding]; other site 381666002314 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666002315 Predicted membrane protein [Function unknown]; Region: COG1238 381666002316 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 381666002317 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666002318 FAD binding domain; Region: FAD_binding_4; pfam01565 381666002319 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666002320 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 381666002321 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 381666002322 Cysteine-rich domain; Region: CCG; pfam02754 381666002323 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 381666002324 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 381666002325 HIT family signature motif; other site 381666002326 catalytic residue [active] 381666002327 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 381666002328 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 381666002329 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 381666002330 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 381666002331 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 381666002332 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 381666002333 S-adenosylmethionine binding site [chemical binding]; other site 381666002334 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 381666002335 SCP-2 sterol transfer family; Region: SCP2; pfam02036 381666002336 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 381666002337 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 381666002338 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 381666002339 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 381666002340 S-adenosylmethionine binding site [chemical binding]; other site 381666002341 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 381666002342 Na binding site [ion binding]; other site 381666002343 putative glycosylation site [posttranslational modification]; other site 381666002344 putative glycosylation site [posttranslational modification]; other site 381666002345 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 381666002346 Uncharacterized conserved protein [Function unknown]; Region: COG2928 381666002347 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 381666002348 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 381666002349 dimer interface [polypeptide binding]; other site 381666002350 anticodon binding site; other site 381666002351 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 381666002352 homodimer interface [polypeptide binding]; other site 381666002353 motif 1; other site 381666002354 active site 381666002355 motif 2; other site 381666002356 GAD domain; Region: GAD; pfam02938 381666002357 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 381666002358 motif 3; other site 381666002359 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 381666002360 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 381666002361 nudix motif; other site 381666002362 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 381666002363 putative catalytic site [active] 381666002364 putative metal binding site [ion binding]; other site 381666002365 putative phosphate binding site [ion binding]; other site 381666002366 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 381666002367 Walker A motif; other site 381666002368 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 381666002369 putative active site [active] 381666002370 catalytic site [active] 381666002371 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 381666002372 putative active site [active] 381666002373 catalytic site [active] 381666002374 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666002375 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666002376 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 381666002377 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 381666002378 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 381666002379 FAD binding site [chemical binding]; other site 381666002380 substrate binding site [chemical binding]; other site 381666002381 catalytic residues [active] 381666002382 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 381666002383 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 381666002384 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 381666002385 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666002386 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666002387 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 381666002388 substrate binding site [chemical binding]; other site 381666002389 oxyanion hole (OAH) forming residues; other site 381666002390 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 381666002391 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 381666002392 dimer interface [polypeptide binding]; other site 381666002393 active site 381666002394 EDD domain protein, DegV family; Region: DegV; TIGR00762 381666002395 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 381666002396 enoyl-CoA hydratase; Provisional; Region: PRK06688 381666002397 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 381666002398 substrate binding site [chemical binding]; other site 381666002399 oxyanion hole (OAH) forming residues; other site 381666002400 trimer interface [polypeptide binding]; other site 381666002401 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 381666002402 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 381666002403 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 381666002404 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 381666002405 Walker A/P-loop; other site 381666002406 ATP binding site [chemical binding]; other site 381666002407 Q-loop/lid; other site 381666002408 ABC transporter signature motif; other site 381666002409 Walker B; other site 381666002410 D-loop; other site 381666002411 H-loop/switch region; other site 381666002412 NMT1/THI5 like; Region: NMT1; pfam09084 381666002413 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 381666002414 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 381666002415 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 381666002416 Walker A/P-loop; other site 381666002417 ATP binding site [chemical binding]; other site 381666002418 Q-loop/lid; other site 381666002419 ABC transporter signature motif; other site 381666002420 Walker B; other site 381666002421 D-loop; other site 381666002422 H-loop/switch region; other site 381666002423 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 381666002424 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 381666002425 dimer interface [polypeptide binding]; other site 381666002426 conserved gate region; other site 381666002427 putative PBP binding loops; other site 381666002428 ABC-ATPase subunit interface; other site 381666002429 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666002430 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 381666002431 dimerization interface [polypeptide binding]; other site 381666002432 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 381666002433 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 381666002434 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 381666002435 NAD(P) binding site [chemical binding]; other site 381666002436 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 381666002437 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 381666002438 substrate binding pocket [chemical binding]; other site 381666002439 membrane-bound complex binding site; other site 381666002440 hinge residues; other site 381666002441 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666002442 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 381666002443 dimer interface [polypeptide binding]; other site 381666002444 conserved gate region; other site 381666002445 putative PBP binding loops; other site 381666002446 ABC-ATPase subunit interface; other site 381666002447 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666002448 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 381666002449 dimer interface [polypeptide binding]; other site 381666002450 conserved gate region; other site 381666002451 putative PBP binding loops; other site 381666002452 ABC-ATPase subunit interface; other site 381666002453 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 381666002454 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 381666002455 Walker A/P-loop; other site 381666002456 ATP binding site [chemical binding]; other site 381666002457 Q-loop/lid; other site 381666002458 ABC transporter signature motif; other site 381666002459 Walker B; other site 381666002460 D-loop; other site 381666002461 H-loop/switch region; other site 381666002462 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 381666002463 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 381666002464 putative active site [active] 381666002465 putative dimer interface [polypeptide binding]; other site 381666002466 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 381666002467 tartrate dehydrogenase; Region: TTC; TIGR02089 381666002468 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 381666002469 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 381666002470 MOFRL family; Region: MOFRL; pfam05161 381666002471 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 381666002472 active site 381666002473 substrate binding pocket [chemical binding]; other site 381666002474 dimer interface [polypeptide binding]; other site 381666002475 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 381666002476 OsmC-like protein; Region: OsmC; cl00767 381666002477 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 381666002478 23S rRNA interface [nucleotide binding]; other site 381666002479 L3 interface [polypeptide binding]; other site 381666002480 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 381666002481 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 381666002482 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 381666002483 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 381666002484 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 381666002485 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666002486 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666002487 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 381666002488 dimerization interface [polypeptide binding]; other site 381666002489 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 381666002490 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 381666002491 Peptidase family M23; Region: Peptidase_M23; pfam01551 381666002492 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 381666002493 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 381666002494 active site 381666002495 HIGH motif; other site 381666002496 dimer interface [polypeptide binding]; other site 381666002497 KMSKS motif; other site 381666002498 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 381666002499 RNA binding surface [nucleotide binding]; other site 381666002500 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 381666002501 putative active site [active] 381666002502 dimerization interface [polypeptide binding]; other site 381666002503 putative tRNAtyr binding site [nucleotide binding]; other site 381666002504 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 381666002505 substrate binding site [chemical binding]; other site 381666002506 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 381666002507 catalytic core [active] 381666002508 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 381666002509 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 381666002510 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 381666002511 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 381666002512 Walker A motif; other site 381666002513 ATP binding site [chemical binding]; other site 381666002514 Walker B motif; other site 381666002515 arginine finger; other site 381666002516 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 381666002517 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 381666002518 RuvA N terminal domain; Region: RuvA_N; pfam01330 381666002519 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 381666002520 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 381666002521 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 381666002522 putative active site [active] 381666002523 catalytic site [active] 381666002524 putative metal binding site [ion binding]; other site 381666002525 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 381666002526 active site 381666002527 putative DNA-binding cleft [nucleotide binding]; other site 381666002528 dimer interface [polypeptide binding]; other site 381666002529 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 381666002530 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 381666002531 purine monophosphate binding site [chemical binding]; other site 381666002532 dimer interface [polypeptide binding]; other site 381666002533 putative catalytic residues [active] 381666002534 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 381666002535 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 381666002536 DNA-binding protein Fis; Provisional; Region: PRK01905 381666002537 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 381666002538 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 381666002539 FMN binding site [chemical binding]; other site 381666002540 active site 381666002541 catalytic residues [active] 381666002542 substrate binding site [chemical binding]; other site 381666002543 hypothetical protein; Provisional; Region: PRK06996 381666002544 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 381666002545 proline aminopeptidase P II; Provisional; Region: PRK10879 381666002546 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 381666002547 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 381666002548 active site 381666002549 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 381666002550 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 381666002551 Substrate binding site; other site 381666002552 metal-binding site 381666002553 Predicted membrane protein [Function unknown]; Region: COG4392 381666002554 AzlC protein; Region: AzlC; pfam03591 381666002555 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 381666002556 Phosphotransferase enzyme family; Region: APH; pfam01636 381666002557 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 381666002558 OstA-like protein; Region: OstA; cl00844 381666002559 OstA-like protein; Region: OstA; cl00844 381666002560 Organic solvent tolerance protein; Region: OstA_C; pfam04453 381666002561 SurA N-terminal domain; Region: SurA_N; pfam09312 381666002562 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 381666002563 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 381666002564 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 381666002565 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 381666002566 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 381666002567 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 381666002568 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 381666002569 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 381666002570 active site 381666002571 HIGH motif; other site 381666002572 dimer interface [polypeptide binding]; other site 381666002573 KMSKS motif; other site 381666002574 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666002575 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 381666002576 dimer interface [polypeptide binding]; other site 381666002577 active site 381666002578 metal binding site [ion binding]; metal-binding site 381666002579 glutathione binding site [chemical binding]; other site 381666002580 Protein of unknown function DUF45; Region: DUF45; pfam01863 381666002581 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 381666002582 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 381666002583 putative acyl-acceptor binding pocket; other site 381666002584 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 381666002585 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 381666002586 active site 381666002587 motif I; other site 381666002588 motif II; other site 381666002589 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 381666002590 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 381666002591 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 381666002592 dimer interface [polypeptide binding]; other site 381666002593 motif 1; other site 381666002594 active site 381666002595 motif 2; other site 381666002596 motif 3; other site 381666002597 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 381666002598 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 381666002599 putative active site [active] 381666002600 catalytic triad [active] 381666002601 putative dimer interface [polypeptide binding]; other site 381666002602 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 381666002603 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 381666002604 Transporter associated domain; Region: CorC_HlyC; smart01091 381666002605 unkown domain/putative metalloprotease fusion protein; Provisional; Region: PRK13963 381666002606 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 381666002607 PhoH-like protein; Region: PhoH; pfam02562 381666002608 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 381666002609 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 381666002610 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 381666002611 FeS/SAM binding site; other site 381666002612 TRAM domain; Region: TRAM; pfam01938 381666002613 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 381666002614 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 381666002615 Cl- selectivity filter; other site 381666002616 Cl- binding residues [ion binding]; other site 381666002617 pore gating glutamate residue; other site 381666002618 dimer interface [polypeptide binding]; other site 381666002619 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 381666002620 helicase 45; Provisional; Region: PTZ00424 381666002621 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 381666002622 ATP binding site [chemical binding]; other site 381666002623 Mg++ binding site [ion binding]; other site 381666002624 motif III; other site 381666002625 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 381666002626 nucleotide binding region [chemical binding]; other site 381666002627 ATP-binding site [chemical binding]; other site 381666002628 serine/threonine protein kinase; Provisional; Region: PRK11768 381666002629 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 381666002630 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 381666002631 Ligand Binding Site [chemical binding]; other site 381666002632 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666002633 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666002634 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666002635 transcriptional regulator FimZ; Provisional; Region: PRK09935 381666002636 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 381666002637 active site 381666002638 phosphorylation site [posttranslational modification] 381666002639 intermolecular recognition site; other site 381666002640 dimerization interface [polypeptide binding]; other site 381666002641 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 381666002642 DNA binding residues [nucleotide binding] 381666002643 dimerization interface [polypeptide binding]; other site 381666002644 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 381666002645 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 381666002646 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 381666002647 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 381666002648 Peptidase M15; Region: Peptidase_M15_3; cl01194 381666002649 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 381666002650 putative substrate translocation pore; other site 381666002651 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 381666002652 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 381666002653 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666002654 HAMP domain; Region: HAMP; pfam00672 381666002655 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 381666002656 dimer interface [polypeptide binding]; other site 381666002657 phosphorylation site [posttranslational modification] 381666002658 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 381666002659 ATP binding site [chemical binding]; other site 381666002660 Mg2+ binding site [ion binding]; other site 381666002661 G-X-G motif; other site 381666002662 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666002663 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 381666002664 active site 381666002665 phosphorylation site [posttranslational modification] 381666002666 intermolecular recognition site; other site 381666002667 dimerization interface [polypeptide binding]; other site 381666002668 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 381666002669 DNA binding site [nucleotide binding] 381666002670 recombinase A; Provisional; Region: recA; PRK09354 381666002671 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 381666002672 hexamer interface [polypeptide binding]; other site 381666002673 Walker A motif; other site 381666002674 ATP binding site [chemical binding]; other site 381666002675 Walker B motif; other site 381666002676 RecX family; Region: RecX; cl00936 381666002677 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 381666002678 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 381666002679 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 381666002680 CoA-ligase; Region: Ligase_CoA; pfam00549 381666002681 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 381666002682 CoA binding domain; Region: CoA_binding; smart00881 381666002683 CoA-ligase; Region: Ligase_CoA; pfam00549 381666002684 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 381666002685 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 381666002686 O-Antigen ligase; Region: Wzy_C; pfam04932 381666002687 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 381666002688 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 381666002689 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 381666002690 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 381666002691 trimer interface [polypeptide binding]; other site 381666002692 dimer interface [polypeptide binding]; other site 381666002693 putative active site [active] 381666002694 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 381666002695 Peptidase family M48; Region: Peptidase_M48; pfam01435 381666002696 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 381666002697 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 381666002698 SnoaL-like domain; Region: SnoaL_3; pfam13474 381666002699 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 381666002700 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 381666002701 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 381666002702 putative active site [active] 381666002703 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 381666002704 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 381666002705 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 381666002706 homodimer interface [polypeptide binding]; other site 381666002707 substrate-cofactor binding pocket; other site 381666002708 catalytic residue [active] 381666002709 DEAD-like helicases superfamily; Region: DEXDc; smart00487 381666002710 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 381666002711 ATP binding site [chemical binding]; other site 381666002712 putative Mg++ binding site [ion binding]; other site 381666002713 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 381666002714 nucleotide binding region [chemical binding]; other site 381666002715 ATP-binding site [chemical binding]; other site 381666002716 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666002717 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 381666002718 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666002719 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 381666002720 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 381666002721 Phosphoglycerate kinase; Region: PGK; pfam00162 381666002722 substrate binding site [chemical binding]; other site 381666002723 hinge regions; other site 381666002724 ADP binding site [chemical binding]; other site 381666002725 catalytic site [active] 381666002726 pyruvate kinase; Provisional; Region: PRK05826 381666002727 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 381666002728 domain interfaces; other site 381666002729 active site 381666002730 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 381666002731 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 381666002732 intersubunit interface [polypeptide binding]; other site 381666002733 active site 381666002734 zinc binding site [ion binding]; other site 381666002735 Na+ binding site [ion binding]; other site 381666002736 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 381666002737 ATP binding site [chemical binding]; other site 381666002738 active site 381666002739 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 381666002740 substrate binding site [chemical binding]; other site 381666002741 AIR carboxylase; Region: AIRC; pfam00731 381666002742 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 381666002743 ATP-grasp domain; Region: ATP-grasp; pfam02222 381666002744 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 381666002745 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 381666002746 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 381666002747 AzlC protein; Region: AzlC; pfam03591 381666002748 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 381666002749 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666002750 MarR family; Region: MarR; pfam01047 381666002751 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 381666002752 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 381666002753 putative ligand binding site [chemical binding]; other site 381666002754 hypothetical protein; Provisional; Region: PRK07538 381666002755 hypothetical protein; Provisional; Region: PRK07236 381666002756 Predicted membrane protein [Function unknown]; Region: COG4125 381666002757 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 381666002758 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 381666002759 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666002760 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666002761 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 381666002762 dimerization interface [polypeptide binding]; other site 381666002763 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666002764 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 381666002765 Protein export membrane protein; Region: SecD_SecF; cl14618 381666002766 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 381666002767 Protein export membrane protein; Region: SecD_SecF; cl14618 381666002768 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666002769 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666002770 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666002771 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 381666002772 active site 381666002773 phosphorylation site [posttranslational modification] 381666002774 intermolecular recognition site; other site 381666002775 dimerization interface [polypeptide binding]; other site 381666002776 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 381666002777 DNA binding site [nucleotide binding] 381666002778 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 381666002779 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 381666002780 dimerization interface [polypeptide binding]; other site 381666002781 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 381666002782 dimer interface [polypeptide binding]; other site 381666002783 phosphorylation site [posttranslational modification] 381666002784 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 381666002785 ATP binding site [chemical binding]; other site 381666002786 Mg2+ binding site [ion binding]; other site 381666002787 G-X-G motif; other site 381666002788 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 381666002789 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 381666002790 putative deacylase active site [active] 381666002791 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 381666002792 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 381666002793 active site 381666002794 Int/Topo IB signature motif; other site 381666002795 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 381666002796 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 381666002797 DNA binding site [nucleotide binding] 381666002798 active site 381666002799 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666002800 Predicted permeases [General function prediction only]; Region: COG0679 381666002801 epoxyqueuosine reductase; Region: TIGR00276 381666002802 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 381666002803 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 381666002804 AMIN domain; Region: AMIN; pfam11741 381666002805 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 381666002806 active site 381666002807 metal binding site [ion binding]; metal-binding site 381666002808 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 381666002809 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 381666002810 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666002811 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666002812 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 381666002813 putative dimerization interface [polypeptide binding]; other site 381666002814 Methyltransferase domain; Region: Methyltransf_23; pfam13489 381666002815 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 381666002816 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 381666002817 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 381666002818 NAD binding site [chemical binding]; other site 381666002819 homodimer interface [polypeptide binding]; other site 381666002820 homotetramer interface [polypeptide binding]; other site 381666002821 active site 381666002822 adenylate kinase; Reviewed; Region: adk; PRK00279 381666002823 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 381666002824 AMP-binding site [chemical binding]; other site 381666002825 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 381666002826 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 381666002827 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 381666002828 Ligand binding site; other site 381666002829 oligomer interface; other site 381666002830 Uncharacterized conserved protein [Function unknown]; Region: COG2835 381666002831 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 381666002832 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 381666002833 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 381666002834 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 381666002835 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 381666002836 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 381666002837 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 381666002838 generic binding surface II; other site 381666002839 generic binding surface I; other site 381666002840 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 381666002841 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 381666002842 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 381666002843 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 381666002844 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666002845 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666002846 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666002847 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666002848 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666002849 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666002850 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 381666002851 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 381666002852 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 381666002853 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 381666002854 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 381666002855 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 381666002856 substrate binding pocket [chemical binding]; other site 381666002857 catalytic triad [active] 381666002858 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR8; cd08273 381666002859 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666002860 putative NAD(P) binding site [chemical binding]; other site 381666002861 Isochorismatase family; Region: Isochorismatase; pfam00857 381666002862 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 381666002863 catalytic triad [active] 381666002864 dimer interface [polypeptide binding]; other site 381666002865 conserved cis-peptide bond; other site 381666002866 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 381666002867 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666002868 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666002869 trimer interface [polypeptide binding]; other site 381666002870 eyelet of channel; other site 381666002871 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666002872 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 381666002873 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 381666002874 active site 381666002875 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 381666002876 putative substrate binding pocket [chemical binding]; other site 381666002877 trimer interface [polypeptide binding]; other site 381666002878 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666002879 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666002880 trimer interface [polypeptide binding]; other site 381666002881 eyelet of channel; other site 381666002882 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 381666002883 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 381666002884 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 381666002885 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 381666002886 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 381666002887 PGAP1-like protein; Region: PGAP1; pfam07819 381666002888 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666002889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666002890 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 381666002891 putative dimerization interface [polypeptide binding]; other site 381666002892 Transcriptional regulators [Transcription]; Region: PurR; COG1609 381666002893 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 381666002894 DNA binding site [nucleotide binding] 381666002895 domain linker motif; other site 381666002896 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 381666002897 dimerization interface [polypeptide binding]; other site 381666002898 ligand binding site [chemical binding]; other site 381666002899 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666002900 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 381666002901 NAD(P) binding site [chemical binding]; other site 381666002902 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 381666002903 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 381666002904 active site 381666002905 Cupin domain; Region: Cupin_2; cl17218 381666002906 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 381666002907 Fe-S cluster binding site [ion binding]; other site 381666002908 active site 381666002909 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 381666002910 Resolvase, N terminal domain; Region: Resolvase; pfam00239 381666002911 catalytic residues [active] 381666002912 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 381666002913 DNA-binding interface [nucleotide binding]; DNA binding site 381666002914 Hemerythrin-like domain; Region: Hr-like; cd12108 381666002915 Fe binding site [ion binding]; other site 381666002916 Ferredoxin [Energy production and conversion]; Region: COG1146 381666002917 4Fe-4S binding domain; Region: Fer4; pfam00037 381666002918 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 381666002919 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666002920 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 381666002921 PBP superfamily domain; Region: PBP_like; pfam12727 381666002922 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 381666002923 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 381666002924 putative dimer interface [polypeptide binding]; other site 381666002925 [2Fe-2S] cluster binding site [ion binding]; other site 381666002926 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 381666002927 putative dimer interface [polypeptide binding]; other site 381666002928 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 381666002929 SLBB domain; Region: SLBB; pfam10531 381666002930 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 381666002931 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 381666002932 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 381666002933 catalytic loop [active] 381666002934 iron binding site [ion binding]; other site 381666002935 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 381666002936 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 381666002937 [4Fe-4S] binding site [ion binding]; other site 381666002938 molybdopterin cofactor binding site; other site 381666002939 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 381666002940 molybdopterin cofactor binding site; other site 381666002941 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 381666002942 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 381666002943 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 381666002944 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 381666002945 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 381666002946 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 381666002947 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 381666002948 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 381666002949 ImpE protein; Region: ImpE; pfam07024 381666002950 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 381666002951 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 381666002952 Walker A motif; other site 381666002953 ATP binding site [chemical binding]; other site 381666002954 Walker B motif; other site 381666002955 arginine finger; other site 381666002956 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 381666002957 Walker A motif; other site 381666002958 ATP binding site [chemical binding]; other site 381666002959 Walker B motif; other site 381666002960 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 381666002961 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 381666002962 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 381666002963 Protein of unknown function (DUF877); Region: DUF877; pfam05943 381666002964 Protein of unknown function (DUF796); Region: DUF796; pfam05638 381666002965 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 381666002966 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 381666002967 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 381666002968 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 381666002969 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 381666002970 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 381666002971 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 381666002972 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 381666002973 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 381666002974 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 381666002975 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666002976 ligand binding site [chemical binding]; other site 381666002977 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 381666002978 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 381666002979 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 381666002980 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 381666002981 Transglycosylase; Region: Transgly; pfam00912 381666002982 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 381666002983 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 381666002984 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 381666002985 transmembrane helices; other site 381666002986 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 381666002987 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 381666002988 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 381666002989 propionate/acetate kinase; Provisional; Region: PRK12379 381666002990 Acetokinase family; Region: Acetate_kinase; cl17229 381666002991 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 381666002992 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 381666002993 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 381666002994 TOBE domain; Region: TOBE; cl01440 381666002995 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 381666002996 Lysine efflux permease [General function prediction only]; Region: COG1279 381666002997 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 381666002998 putative active site [active] 381666002999 putative metal binding residues [ion binding]; other site 381666003000 signature motif; other site 381666003001 putative triphosphate binding site [ion binding]; other site 381666003002 dimer interface [polypeptide binding]; other site 381666003003 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666003004 Walker A/P-loop; other site 381666003005 ATP binding site [chemical binding]; other site 381666003006 ABC transporter; Region: ABC_tran; pfam00005 381666003007 Q-loop/lid; other site 381666003008 ABC transporter signature motif; other site 381666003009 Walker B; other site 381666003010 D-loop; other site 381666003011 H-loop/switch region; other site 381666003012 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 381666003013 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 381666003014 putative PBP binding loops; other site 381666003015 ABC-ATPase subunit interface; other site 381666003016 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 381666003017 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 381666003018 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 381666003019 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 381666003020 putative ligand binding site [chemical binding]; other site 381666003021 NAD binding site [chemical binding]; other site 381666003022 catalytic site [active] 381666003023 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 381666003024 Protein of unknown function (DUF330); Region: DUF330; pfam03886 381666003025 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 381666003026 mce related protein; Region: MCE; pfam02470 381666003027 mce related protein; Region: MCE; pfam02470 381666003028 mce related protein; Region: MCE; pfam02470 381666003029 Paraquat-inducible protein A; Region: PqiA; pfam04403 381666003030 Paraquat-inducible protein A; Region: PqiA; pfam04403 381666003031 Domain of unknown function DUF20; Region: UPF0118; pfam01594 381666003032 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 381666003033 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 381666003034 HPP family; Region: HPP; pfam04982 381666003035 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 381666003036 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666003037 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 381666003038 putative DNA binding site [nucleotide binding]; other site 381666003039 putative Zn2+ binding site [ion binding]; other site 381666003040 AsnC family; Region: AsnC_trans_reg; pfam01037 381666003041 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 381666003042 Amidinotransferase; Region: Amidinotransf; cl12043 381666003043 ornithine cyclodeaminase; Validated; Region: PRK07589 381666003044 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 381666003045 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 381666003046 DNA binding residues [nucleotide binding] 381666003047 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 381666003048 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 381666003049 active site 381666003050 phosphorylation site [posttranslational modification] 381666003051 intermolecular recognition site; other site 381666003052 dimerization interface [polypeptide binding]; other site 381666003053 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 381666003054 Walker A motif; other site 381666003055 ATP binding site [chemical binding]; other site 381666003056 Walker B motif; other site 381666003057 arginine finger; other site 381666003058 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 381666003059 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 381666003060 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 381666003061 dimer interface [polypeptide binding]; other site 381666003062 phosphorylation site [posttranslational modification] 381666003063 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 381666003064 ATP binding site [chemical binding]; other site 381666003065 G-X-G motif; other site 381666003066 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 381666003067 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 381666003068 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 381666003069 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666003070 putative substrate translocation pore; other site 381666003071 urocanate hydratase; Provisional; Region: PRK05414 381666003072 putative diguanylate cyclase; Provisional; Region: PRK09776 381666003073 MASE1; Region: MASE1; cl17823 381666003074 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 381666003075 putative active site [active] 381666003076 heme pocket [chemical binding]; other site 381666003077 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 381666003078 putative active site [active] 381666003079 heme pocket [chemical binding]; other site 381666003080 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 381666003081 putative active site [active] 381666003082 heme pocket [chemical binding]; other site 381666003083 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666003084 metal binding site [ion binding]; metal-binding site 381666003085 active site 381666003086 I-site; other site 381666003087 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 381666003088 SnoaL-like domain; Region: SnoaL_2; pfam12680 381666003089 Cytochrome c; Region: Cytochrom_C; pfam00034 381666003090 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 381666003091 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 381666003092 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 381666003093 catalytic loop [active] 381666003094 iron binding site [ion binding]; other site 381666003095 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666003096 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666003097 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 381666003098 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666003099 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666003100 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 381666003101 substrate binding pocket [chemical binding]; other site 381666003102 membrane-bound complex binding site; other site 381666003103 hinge residues; other site 381666003104 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 381666003105 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666003106 catalytic residue [active] 381666003107 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 381666003108 oligomerisation interface [polypeptide binding]; other site 381666003109 mobile loop; other site 381666003110 roof hairpin; other site 381666003111 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 381666003112 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 381666003113 ring oligomerisation interface [polypeptide binding]; other site 381666003114 ATP/Mg binding site [chemical binding]; other site 381666003115 stacking interactions; other site 381666003116 hinge regions; other site 381666003117 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 381666003118 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 381666003119 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 381666003120 putative active site [active] 381666003121 putative metal binding site [ion binding]; other site 381666003122 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 381666003123 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 381666003124 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 381666003125 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 381666003126 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 381666003127 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 381666003128 ATP binding site [chemical binding]; other site 381666003129 Walker A motif; other site 381666003130 hexamer interface [polypeptide binding]; other site 381666003131 Walker B motif; other site 381666003132 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 381666003133 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 381666003134 intermolecular recognition site; other site 381666003135 active site 381666003136 dimerization interface [polypeptide binding]; other site 381666003137 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 381666003138 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 381666003139 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 381666003140 TadE-like protein; Region: TadE; pfam07811 381666003141 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 381666003142 TadE-like protein; Region: TadE; pfam07811 381666003143 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 381666003144 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 381666003145 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 381666003146 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 381666003147 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 381666003148 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 381666003149 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 381666003150 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 381666003151 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 381666003152 Walker A motif; other site 381666003153 ATP binding site [chemical binding]; other site 381666003154 Walker B motif; other site 381666003155 arginine finger; other site 381666003156 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 381666003157 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 381666003158 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 381666003159 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 381666003160 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 381666003161 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 381666003162 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 381666003163 Ligand binding site; other site 381666003164 Putative Catalytic site; other site 381666003165 DXD motif; other site 381666003166 Predicted membrane protein [Function unknown]; Region: COG2246 381666003167 GtrA-like protein; Region: GtrA; pfam04138 381666003168 Methyltransferase domain; Region: Methyltransf_23; pfam13489 381666003169 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 381666003170 S-adenosylmethionine binding site [chemical binding]; other site 381666003171 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 381666003172 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 381666003173 Walker A motif; other site 381666003174 ATP binding site [chemical binding]; other site 381666003175 Walker B motif; other site 381666003176 arginine finger; other site 381666003177 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 381666003178 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666003179 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666003180 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 381666003181 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 381666003182 dimerization interface [polypeptide binding]; other site 381666003183 substrate binding pocket [chemical binding]; other site 381666003184 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 381666003185 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666003186 putative substrate translocation pore; other site 381666003187 Repair protein; Region: Repair_PSII; cl01535 381666003188 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 381666003189 Repair protein; Region: Repair_PSII; pfam04536 381666003190 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 381666003191 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 381666003192 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 381666003193 inhibitor-cofactor binding pocket; inhibition site 381666003194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666003195 catalytic residue [active] 381666003196 Rubredoxin [Energy production and conversion]; Region: COG1773 381666003197 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 381666003198 iron binding site [ion binding]; other site 381666003199 Response regulator receiver domain; Region: Response_reg; pfam00072 381666003200 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 381666003201 active site 381666003202 phosphorylation site [posttranslational modification] 381666003203 intermolecular recognition site; other site 381666003204 dimerization interface [polypeptide binding]; other site 381666003205 Response regulator receiver domain; Region: Response_reg; pfam00072 381666003206 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 381666003207 active site 381666003208 phosphorylation site [posttranslational modification] 381666003209 intermolecular recognition site; other site 381666003210 dimerization interface [polypeptide binding]; other site 381666003211 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 381666003212 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 381666003213 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 381666003214 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666003215 dimer interface [polypeptide binding]; other site 381666003216 putative CheW interface [polypeptide binding]; other site 381666003217 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 381666003218 putative binding surface; other site 381666003219 active site 381666003220 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 381666003221 putative binding surface; other site 381666003222 active site 381666003223 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 381666003224 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 381666003225 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 381666003226 ATP binding site [chemical binding]; other site 381666003227 Mg2+ binding site [ion binding]; other site 381666003228 G-X-G motif; other site 381666003229 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 381666003230 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 381666003231 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 381666003232 active site 381666003233 phosphorylation site [posttranslational modification] 381666003234 intermolecular recognition site; other site 381666003235 dimerization interface [polypeptide binding]; other site 381666003236 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 381666003237 D-galactonate transporter; Region: 2A0114; TIGR00893 381666003238 putative substrate translocation pore; other site 381666003239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666003240 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 381666003241 NAD(P) binding site [chemical binding]; other site 381666003242 active site 381666003243 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666003244 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 381666003245 NAD(P) binding site [chemical binding]; other site 381666003246 catalytic residues [active] 381666003247 catalytic residues [active] 381666003248 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 381666003249 dimer interface [polypeptide binding]; other site 381666003250 substrate binding site [chemical binding]; other site 381666003251 metal binding sites [ion binding]; metal-binding site 381666003252 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 381666003253 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 381666003254 Protein of unknown function, DUF482; Region: DUF482; pfam04339 381666003255 NAD synthetase; Reviewed; Region: nadE; PRK02628 381666003256 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 381666003257 multimer interface [polypeptide binding]; other site 381666003258 active site 381666003259 catalytic triad [active] 381666003260 protein interface 1 [polypeptide binding]; other site 381666003261 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 381666003262 homodimer interface [polypeptide binding]; other site 381666003263 NAD binding pocket [chemical binding]; other site 381666003264 ATP binding pocket [chemical binding]; other site 381666003265 Mg binding site [ion binding]; other site 381666003266 active-site loop [active] 381666003267 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 381666003268 Nitrogen regulatory protein P-II; Region: P-II; smart00938 381666003269 Predicted membrane protein [Function unknown]; Region: COG2860 381666003270 UPF0126 domain; Region: UPF0126; pfam03458 381666003271 UPF0126 domain; Region: UPF0126; pfam03458 381666003272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 381666003273 Smr domain; Region: Smr; pfam01713 381666003274 thioredoxin reductase; Provisional; Region: PRK10262 381666003275 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666003276 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666003277 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 381666003278 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 381666003279 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 381666003280 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 381666003281 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 381666003282 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 381666003283 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 381666003284 tetramer interface [polypeptide binding]; other site 381666003285 catalytic Zn binding site [ion binding]; other site 381666003286 NADP binding site [chemical binding]; other site 381666003287 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 381666003288 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 381666003289 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 381666003290 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 381666003291 dimer interface [polypeptide binding]; other site 381666003292 conserved gate region; other site 381666003293 putative PBP binding loops; other site 381666003294 ABC-ATPase subunit interface; other site 381666003295 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 381666003296 dimer interface [polypeptide binding]; other site 381666003297 conserved gate region; other site 381666003298 putative PBP binding loops; other site 381666003299 ABC-ATPase subunit interface; other site 381666003300 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 381666003301 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 381666003302 Walker A/P-loop; other site 381666003303 ATP binding site [chemical binding]; other site 381666003304 Q-loop/lid; other site 381666003305 ABC transporter signature motif; other site 381666003306 Walker B; other site 381666003307 D-loop; other site 381666003308 H-loop/switch region; other site 381666003309 TOBE domain; Region: TOBE_2; pfam08402 381666003310 recombination factor protein RarA; Reviewed; Region: PRK13342 381666003311 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 381666003312 Walker A motif; other site 381666003313 ATP binding site [chemical binding]; other site 381666003314 Walker B motif; other site 381666003315 arginine finger; other site 381666003316 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 381666003317 seryl-tRNA synthetase; Provisional; Region: PRK05431 381666003318 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 381666003319 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 381666003320 dimer interface [polypeptide binding]; other site 381666003321 active site 381666003322 motif 1; other site 381666003323 motif 2; other site 381666003324 motif 3; other site 381666003325 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 381666003326 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 381666003327 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 381666003328 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 381666003329 active site 381666003330 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 381666003331 Domain of unknown function DUF21; Region: DUF21; pfam01595 381666003332 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 381666003333 Transporter associated domain; Region: CorC_HlyC; smart01091 381666003334 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666003335 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 381666003336 dimerization interface [polypeptide binding]; other site 381666003337 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 381666003338 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 381666003339 hydroxyglutarate oxidase; Provisional; Region: PRK11728 381666003340 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 381666003341 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666003342 substrate binding pocket [chemical binding]; other site 381666003343 membrane-bound complex binding site; other site 381666003344 hinge residues; other site 381666003345 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666003346 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 381666003347 substrate binding pocket [chemical binding]; other site 381666003348 membrane-bound complex binding site; other site 381666003349 hinge residues; other site 381666003350 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666003351 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 381666003352 dimer interface [polypeptide binding]; other site 381666003353 conserved gate region; other site 381666003354 putative PBP binding loops; other site 381666003355 ABC-ATPase subunit interface; other site 381666003356 cyanophycin synthetase; Provisional; Region: PRK14016 381666003357 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 381666003358 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 381666003359 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 381666003360 cyanophycin synthetase; Provisional; Region: PRK14016 381666003361 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 381666003362 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 381666003363 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 381666003364 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 381666003365 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 381666003366 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 381666003367 Walker A/P-loop; other site 381666003368 ATP binding site [chemical binding]; other site 381666003369 Q-loop/lid; other site 381666003370 ABC transporter signature motif; other site 381666003371 Walker B; other site 381666003372 D-loop; other site 381666003373 H-loop/switch region; other site 381666003374 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 381666003375 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 381666003376 Fimbrial protein; Region: Fimbrial; pfam00419 381666003377 PAS domain S-box; Region: sensory_box; TIGR00229 381666003378 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 381666003379 putative active site [active] 381666003380 heme pocket [chemical binding]; other site 381666003381 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 381666003382 Histidine kinase; Region: HisKA_3; pfam07730 381666003383 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 381666003384 ATP binding site [chemical binding]; other site 381666003385 Mg2+ binding site [ion binding]; other site 381666003386 G-X-G motif; other site 381666003387 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666003388 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 381666003389 active site 381666003390 phosphorylation site [posttranslational modification] 381666003391 intermolecular recognition site; other site 381666003392 dimerization interface [polypeptide binding]; other site 381666003393 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 381666003394 DNA binding residues [nucleotide binding] 381666003395 dimerization interface [polypeptide binding]; other site 381666003396 cytosine deaminase; Provisional; Region: PRK05985 381666003397 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 381666003398 active site 381666003399 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 381666003400 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 381666003401 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 381666003402 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 381666003403 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 381666003404 motif II; other site 381666003405 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 381666003406 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 381666003407 S-adenosylmethionine binding site [chemical binding]; other site 381666003408 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 381666003409 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666003410 ligand binding site [chemical binding]; other site 381666003411 DNA gyrase subunit A; Validated; Region: PRK05560 381666003412 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 381666003413 CAP-like domain; other site 381666003414 active site 381666003415 primary dimer interface [polypeptide binding]; other site 381666003416 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 381666003417 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 381666003418 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 381666003419 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 381666003420 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 381666003421 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 381666003422 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 381666003423 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 381666003424 homodimer interface [polypeptide binding]; other site 381666003425 substrate-cofactor binding pocket; other site 381666003426 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666003427 catalytic residue [active] 381666003428 Chorismate mutase type II; Region: CM_2; cl00693 381666003429 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 381666003430 Prephenate dehydratase; Region: PDT; pfam00800 381666003431 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 381666003432 putative L-Phe binding site [chemical binding]; other site 381666003433 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 381666003434 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 381666003435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666003436 homodimer interface [polypeptide binding]; other site 381666003437 catalytic residue [active] 381666003438 prephenate dehydrogenase; Validated; Region: PRK08507 381666003439 Prephenate dehydrogenase; Region: PDH; pfam02153 381666003440 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 381666003441 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 381666003442 hinge; other site 381666003443 active site 381666003444 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 381666003445 cytidylate kinase; Provisional; Region: cmk; PRK00023 381666003446 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 381666003447 CMP-binding site; other site 381666003448 The sites determining sugar specificity; other site 381666003449 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 381666003450 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 381666003451 RNA binding site [nucleotide binding]; other site 381666003452 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 381666003453 RNA binding site [nucleotide binding]; other site 381666003454 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 381666003455 RNA binding site [nucleotide binding]; other site 381666003456 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 381666003457 RNA binding site [nucleotide binding]; other site 381666003458 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 381666003459 RNA binding site [nucleotide binding]; other site 381666003460 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 381666003461 RNA binding site [nucleotide binding]; other site 381666003462 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 381666003463 IHF dimer interface [polypeptide binding]; other site 381666003464 IHF - DNA interface [nucleotide binding]; other site 381666003465 tetratricopeptide repeat protein; Provisional; Region: PRK11788 381666003466 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 381666003467 binding surface 381666003468 TPR motif; other site 381666003469 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 381666003470 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 381666003471 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 381666003472 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 381666003473 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 381666003474 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 381666003475 putative ribose interaction site [chemical binding]; other site 381666003476 putative ADP binding site [chemical binding]; other site 381666003477 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 381666003478 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 381666003479 NADP binding site [chemical binding]; other site 381666003480 homopentamer interface [polypeptide binding]; other site 381666003481 substrate binding site [chemical binding]; other site 381666003482 active site 381666003483 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 381666003484 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 381666003485 cysteine synthase B; Region: cysM; TIGR01138 381666003486 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 381666003487 dimer interface [polypeptide binding]; other site 381666003488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666003489 catalytic residue [active] 381666003490 Transglycosylase SLT domain; Region: SLT_2; pfam13406 381666003491 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 381666003492 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666003493 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 381666003494 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 381666003495 putative active site [active] 381666003496 Zn binding site [ion binding]; other site 381666003497 enoyl-CoA hydratase; Validated; Region: PRK08139 381666003498 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 381666003499 substrate binding site [chemical binding]; other site 381666003500 oxyanion hole (OAH) forming residues; other site 381666003501 trimer interface [polypeptide binding]; other site 381666003502 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 381666003503 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 381666003504 Walker A/P-loop; other site 381666003505 ATP binding site [chemical binding]; other site 381666003506 Q-loop/lid; other site 381666003507 ABC transporter signature motif; other site 381666003508 Walker B; other site 381666003509 D-loop; other site 381666003510 H-loop/switch region; other site 381666003511 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 381666003512 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 381666003513 ABC-ATPase subunit interface; other site 381666003514 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 381666003515 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 381666003516 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 381666003517 Ligand binding site [chemical binding]; other site 381666003518 Electron transfer flavoprotein domain; Region: ETF; pfam01012 381666003519 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 381666003520 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 381666003521 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 381666003522 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 381666003523 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 381666003524 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666003525 active site 381666003526 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 381666003527 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 381666003528 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666003529 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666003530 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 381666003531 putative DNA binding site [nucleotide binding]; other site 381666003532 putative Zn2+ binding site [ion binding]; other site 381666003533 AsnC family; Region: AsnC_trans_reg; pfam01037 381666003534 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 381666003535 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 381666003536 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 381666003537 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 381666003538 active site 381666003539 catalytic residues [active] 381666003540 DNA binding site [nucleotide binding] 381666003541 Int/Topo IB signature motif; other site 381666003542 Response regulator receiver domain; Region: Response_reg; pfam00072 381666003543 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 381666003544 active site 381666003545 phosphorylation site [posttranslational modification] 381666003546 intermolecular recognition site; other site 381666003547 dimerization interface [polypeptide binding]; other site 381666003548 Heme NO binding associated; Region: HNOBA; pfam07701 381666003549 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 381666003550 cyclase homology domain; Region: CHD; cd07302 381666003551 nucleotidyl binding site; other site 381666003552 metal binding site [ion binding]; metal-binding site 381666003553 dimer interface [polypeptide binding]; other site 381666003554 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 381666003555 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 381666003556 putative active site [active] 381666003557 heme pocket [chemical binding]; other site 381666003558 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 381666003559 dimer interface [polypeptide binding]; other site 381666003560 phosphorylation site [posttranslational modification] 381666003561 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 381666003562 ATP binding site [chemical binding]; other site 381666003563 Mg2+ binding site [ion binding]; other site 381666003564 G-X-G motif; other site 381666003565 Response regulator receiver domain; Region: Response_reg; pfam00072 381666003566 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 381666003567 active site 381666003568 phosphorylation site [posttranslational modification] 381666003569 intermolecular recognition site; other site 381666003570 dimerization interface [polypeptide binding]; other site 381666003571 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 381666003572 Peptidase family M23; Region: Peptidase_M23; pfam01551 381666003573 Cytochrome c553 [Energy production and conversion]; Region: COG2863 381666003574 Cytochrome c; Region: Cytochrom_C; cl11414 381666003575 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 381666003576 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 381666003577 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 381666003578 homotrimer interaction site [polypeptide binding]; other site 381666003579 putative active site [active] 381666003580 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 381666003581 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 381666003582 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 381666003583 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 381666003584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666003585 NAD(P) binding site [chemical binding]; other site 381666003586 acyl-CoA synthetase; Validated; Region: PRK06188 381666003587 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666003588 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 381666003589 acyl-activating enzyme (AAE) consensus motif; other site 381666003590 putative AMP binding site [chemical binding]; other site 381666003591 putative active site [active] 381666003592 putative CoA binding site [chemical binding]; other site 381666003593 lipid-transfer protein; Provisional; Region: PRK08256 381666003594 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 381666003595 active site 381666003596 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 381666003597 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 381666003598 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 381666003599 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666003600 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666003601 active site 381666003602 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 381666003603 Cytochrome c; Region: Cytochrom_C; cl11414 381666003604 Cytochrome c; Region: Cytochrom_C; pfam00034 381666003605 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 381666003606 Phosphotransferase enzyme family; Region: APH; pfam01636 381666003607 putative active site [active] 381666003608 putative substrate binding site [chemical binding]; other site 381666003609 ATP binding site [chemical binding]; other site 381666003610 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 381666003611 classical (c) SDRs; Region: SDR_c; cd05233 381666003612 NAD(P) binding site [chemical binding]; other site 381666003613 active site 381666003614 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 381666003615 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 381666003616 ligand binding site [chemical binding]; other site 381666003617 homodimer interface [polypeptide binding]; other site 381666003618 NAD(P) binding site [chemical binding]; other site 381666003619 trimer interface B [polypeptide binding]; other site 381666003620 trimer interface A [polypeptide binding]; other site 381666003621 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 381666003622 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 381666003623 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 381666003624 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 381666003625 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666003626 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666003627 trimer interface [polypeptide binding]; other site 381666003628 eyelet of channel; other site 381666003629 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666003630 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666003631 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 381666003632 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 381666003633 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 381666003634 hydroxyglutarate oxidase; Provisional; Region: PRK11728 381666003635 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 381666003636 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 381666003637 benzoate transport; Region: 2A0115; TIGR00895 381666003638 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 381666003639 putative substrate translocation pore; other site 381666003640 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 381666003641 homotrimer interaction site [polypeptide binding]; other site 381666003642 putative active site [active] 381666003643 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 381666003644 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 381666003645 active site 381666003646 metal binding site [ion binding]; metal-binding site 381666003647 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666003648 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666003649 active site 381666003650 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666003651 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666003652 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 381666003653 AAA ATPase domain; Region: AAA_16; pfam13191 381666003654 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 381666003655 DNA binding residues [nucleotide binding] 381666003656 dimerization interface [polypeptide binding]; other site 381666003657 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666003658 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 381666003659 substrate binding site [chemical binding]; other site 381666003660 oxyanion hole (OAH) forming residues; other site 381666003661 trimer interface [polypeptide binding]; other site 381666003662 acyl-CoA synthetase; Validated; Region: PRK06188 381666003663 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666003664 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 381666003665 acyl-activating enzyme (AAE) consensus motif; other site 381666003666 putative AMP binding site [chemical binding]; other site 381666003667 putative active site [active] 381666003668 putative CoA binding site [chemical binding]; other site 381666003669 acetyl-CoA acetyltransferase; Provisional; Region: PRK06065 381666003670 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 381666003671 acetyl-CoA acetyltransferase; Provisional; Region: PRK08313 381666003672 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 381666003673 active site 381666003674 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 381666003675 DUF35 OB-fold domain; Region: DUF35; pfam01796 381666003676 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 381666003677 DUF35 OB-fold domain; Region: DUF35; pfam01796 381666003678 acyl-CoA synthetase; Validated; Region: PRK06188 381666003679 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666003680 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 381666003681 acyl-activating enzyme (AAE) consensus motif; other site 381666003682 putative AMP binding site [chemical binding]; other site 381666003683 putative active site [active] 381666003684 putative CoA binding site [chemical binding]; other site 381666003685 lipid-transfer protein; Provisional; Region: PRK08256 381666003686 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 381666003687 active site 381666003688 enoyl-CoA hydratase; Provisional; Region: PRK06688 381666003689 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 381666003690 substrate binding site [chemical binding]; other site 381666003691 oxyanion hole (OAH) forming residues; other site 381666003692 trimer interface [polypeptide binding]; other site 381666003693 short chain dehydrogenase; Provisional; Region: PRK07576 381666003694 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 381666003695 NAD(P) binding site [chemical binding]; other site 381666003696 substrate binding site [chemical binding]; other site 381666003697 homotetramer interface [polypeptide binding]; other site 381666003698 active site 381666003699 homodimer interface [polypeptide binding]; other site 381666003700 Secretory lipase; Region: LIP; pfam03583 381666003701 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 381666003702 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 381666003703 putative active site [active] 381666003704 putative NTP binding site [chemical binding]; other site 381666003705 putative nucleic acid binding site [nucleotide binding]; other site 381666003706 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 381666003707 Transposase; Region: DDE_Tnp_ISL3; pfam01610 381666003708 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 381666003709 Catalytic domain of Protein Kinases; Region: PKc; cd00180 381666003710 active site 381666003711 ATP binding site [chemical binding]; other site 381666003712 substrate binding site [chemical binding]; other site 381666003713 activation loop (A-loop); other site 381666003714 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 381666003715 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 381666003716 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 381666003717 FeS/SAM binding site; other site 381666003718 transcriptional activator TtdR; Provisional; Region: PRK09801 381666003719 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666003720 putative effector binding pocket; other site 381666003721 dimerization interface [polypeptide binding]; other site 381666003722 TM2 domain; Region: TM2; pfam05154 381666003723 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 381666003724 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 381666003725 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 381666003726 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 381666003727 RimM N-terminal domain; Region: RimM; pfam01782 381666003728 PRC-barrel domain; Region: PRC; pfam05239 381666003729 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 381666003730 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 381666003731 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 381666003732 putative active site [active] 381666003733 putative CoA binding site [chemical binding]; other site 381666003734 nudix motif; other site 381666003735 metal binding site [ion binding]; metal-binding site 381666003736 rhodanese superfamily protein; Provisional; Region: PRK05320 381666003737 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 381666003738 active site residue [active] 381666003739 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 381666003740 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 381666003741 putative active site [active] 381666003742 putative PHP Thumb interface [polypeptide binding]; other site 381666003743 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 381666003744 generic binding surface II; other site 381666003745 generic binding surface I; other site 381666003746 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 381666003747 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 381666003748 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 381666003749 putative metal binding site; other site 381666003750 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 381666003751 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 381666003752 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 381666003753 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 381666003754 Walker A/P-loop; other site 381666003755 ATP binding site [chemical binding]; other site 381666003756 Q-loop/lid; other site 381666003757 ABC transporter signature motif; other site 381666003758 Walker B; other site 381666003759 D-loop; other site 381666003760 H-loop/switch region; other site 381666003761 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 381666003762 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 381666003763 putative active site [active] 381666003764 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 381666003765 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666003766 ribonuclease G; Provisional; Region: PRK11712 381666003767 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 381666003768 homodimer interface [polypeptide binding]; other site 381666003769 oligonucleotide binding site [chemical binding]; other site 381666003770 Maf-like protein; Region: Maf; pfam02545 381666003771 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 381666003772 active site 381666003773 dimer interface [polypeptide binding]; other site 381666003774 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 381666003775 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 381666003776 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 381666003777 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 381666003778 active site 381666003779 (T/H)XGH motif; other site 381666003780 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 381666003781 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 381666003782 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 381666003783 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 381666003784 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 381666003785 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 381666003786 hypothetical protein; Validated; Region: PRK00110 381666003787 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 381666003788 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 381666003789 Walker A motif; other site 381666003790 ATP binding site [chemical binding]; other site 381666003791 Zonular occludens toxin (Zot); Region: Zot; cl17485 381666003792 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666003793 active site 381666003794 benzoate transport; Region: 2A0115; TIGR00895 381666003795 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 381666003796 putative substrate translocation pore; other site 381666003797 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 381666003798 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 381666003799 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 381666003800 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666003801 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 381666003802 catalytic loop [active] 381666003803 iron binding site [ion binding]; other site 381666003804 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666003805 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 381666003806 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666003807 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666003808 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 381666003809 N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia. CSHase is involved in one of the two alternative pathways for creatinine degradation to glycine in microorganisms.This...; Region: CSHase; cd01015 381666003810 Isochorismatase family; Region: Isochorismatase; pfam00857 381666003811 catalytic triad [active] 381666003812 substrate binding site [chemical binding]; other site 381666003813 domain interfaces; other site 381666003814 conserved cis-peptide bond; other site 381666003815 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666003816 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666003817 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 381666003818 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666003819 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666003820 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 381666003821 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666003822 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666003823 Transcriptional regulators [Transcription]; Region: MarR; COG1846 381666003824 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 381666003825 EamA-like transporter family; Region: EamA; pfam00892 381666003826 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 381666003827 EamA-like transporter family; Region: EamA; pfam00892 381666003828 short chain dehydrogenase; Provisional; Region: PRK08339 381666003829 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 381666003830 putative NAD(P) binding site [chemical binding]; other site 381666003831 putative active site [active] 381666003832 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 381666003833 active site 381666003834 dimer interfaces [polypeptide binding]; other site 381666003835 catalytic residues [active] 381666003836 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 381666003837 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 381666003838 NADP binding site [chemical binding]; other site 381666003839 dimer interface [polypeptide binding]; other site 381666003840 Uncharacterized conserved protein [Function unknown]; Region: COG3339 381666003841 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 381666003842 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 381666003843 putative ligand binding site [chemical binding]; other site 381666003844 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 381666003845 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666003846 TM-ABC transporter signature motif; other site 381666003847 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666003848 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 381666003849 TM-ABC transporter signature motif; other site 381666003850 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 381666003851 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 381666003852 Walker A/P-loop; other site 381666003853 ATP binding site [chemical binding]; other site 381666003854 Q-loop/lid; other site 381666003855 ABC transporter signature motif; other site 381666003856 Walker B; other site 381666003857 D-loop; other site 381666003858 H-loop/switch region; other site 381666003859 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 381666003860 Pirin-related protein [General function prediction only]; Region: COG1741 381666003861 Pirin; Region: Pirin; pfam02678 381666003862 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 381666003863 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 381666003864 dimer interface [polypeptide binding]; other site 381666003865 conserved gate region; other site 381666003866 putative PBP binding loops; other site 381666003867 ABC-ATPase subunit interface; other site 381666003868 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 381666003869 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 381666003870 dimer interface [polypeptide binding]; other site 381666003871 conserved gate region; other site 381666003872 ABC-ATPase subunit interface; other site 381666003873 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 381666003874 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 381666003875 Walker A/P-loop; other site 381666003876 ATP binding site [chemical binding]; other site 381666003877 Q-loop/lid; other site 381666003878 ABC transporter signature motif; other site 381666003879 Walker B; other site 381666003880 D-loop; other site 381666003881 H-loop/switch region; other site 381666003882 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc; cd04582 381666003883 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 381666003884 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 381666003885 FeS/SAM binding site; other site 381666003886 HemN C-terminal domain; Region: HemN_C; pfam06969 381666003887 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 381666003888 active site 381666003889 dimerization interface [polypeptide binding]; other site 381666003890 ribonuclease PH; Reviewed; Region: rph; PRK00173 381666003891 Ribonuclease PH; Region: RNase_PH_bact; cd11362 381666003892 hexamer interface [polypeptide binding]; other site 381666003893 active site 381666003894 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 381666003895 active site 381666003896 Protein kinase domain; Region: Pkinase; pfam00069 381666003897 Catalytic domain of Protein Kinases; Region: PKc; cd00180 381666003898 active site 381666003899 ATP binding site [chemical binding]; other site 381666003900 substrate binding site [chemical binding]; other site 381666003901 activation loop (A-loop); other site 381666003902 hypothetical protein; Provisional; Region: PRK11820 381666003903 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 381666003904 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 381666003905 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 381666003906 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 381666003907 catalytic site [active] 381666003908 G-X2-G-X-G-K; other site 381666003909 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 381666003910 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 381666003911 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 381666003912 Zn2+ binding site [ion binding]; other site 381666003913 Mg2+ binding site [ion binding]; other site 381666003914 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 381666003915 synthetase active site [active] 381666003916 NTP binding site [chemical binding]; other site 381666003917 metal binding site [ion binding]; metal-binding site 381666003918 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 381666003919 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 381666003920 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 381666003921 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 381666003922 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 381666003923 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 381666003924 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666003925 DNA-binding site [nucleotide binding]; DNA binding site 381666003926 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 381666003927 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 381666003928 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666003929 homodimer interface [polypeptide binding]; other site 381666003930 catalytic residue [active] 381666003931 Uncharacterized conserved protein [Function unknown]; Region: COG2128 381666003932 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 381666003933 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 381666003934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 381666003935 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 381666003936 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 381666003937 Domain of unknown function (DUF333); Region: DUF333; pfam03891 381666003938 PAS domain; Region: PAS_9; pfam13426 381666003939 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 381666003940 PAS domain; Region: PAS_9; pfam13426 381666003941 putative active site [active] 381666003942 heme pocket [chemical binding]; other site 381666003943 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 381666003944 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666003945 metal binding site [ion binding]; metal-binding site 381666003946 active site 381666003947 I-site; other site 381666003948 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 381666003949 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666003950 DNA-binding site [nucleotide binding]; DNA binding site 381666003951 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 381666003952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666003953 homodimer interface [polypeptide binding]; other site 381666003954 catalytic residue [active] 381666003955 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 381666003956 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666003957 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 381666003958 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 381666003959 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 381666003960 Methyltransferase domain; Region: Methyltransf_32; pfam13679 381666003961 Methyltransferase domain; Region: Methyltransf_31; pfam13847 381666003962 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 381666003963 putative DNA binding site [nucleotide binding]; other site 381666003964 putative Zn2+ binding site [ion binding]; other site 381666003965 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 381666003966 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 381666003967 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 381666003968 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 381666003969 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 381666003970 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 381666003971 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 381666003972 phosphopeptide binding site; other site 381666003973 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 381666003974 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 381666003975 ATP binding site [chemical binding]; other site 381666003976 Walker A motif; other site 381666003977 hexamer interface [polypeptide binding]; other site 381666003978 Walker B motif; other site 381666003979 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 381666003980 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 381666003981 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 381666003982 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 381666003983 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 381666003984 TadE-like protein; Region: TadE; pfam07811 381666003985 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 381666003986 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666003987 ligand binding site [chemical binding]; other site 381666003988 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 381666003989 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 381666003990 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666003991 catalytic residue [active] 381666003992 Protein of unknown function (DUF342); Region: DUF342; pfam03961 381666003993 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 381666003994 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 381666003995 putative active site [active] 381666003996 putative metal binding site [ion binding]; other site 381666003997 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666003998 FAD binding domain; Region: FAD_binding_4; pfam01565 381666003999 Berberine and berberine like; Region: BBE; pfam08031 381666004000 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 381666004001 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 381666004002 AMP binding site [chemical binding]; other site 381666004003 metal binding site [ion binding]; metal-binding site 381666004004 active site 381666004005 aminopeptidase N; Provisional; Region: pepN; PRK14015 381666004006 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 381666004007 active site 381666004008 Zn binding site [ion binding]; other site 381666004009 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 381666004010 malic enzyme; Reviewed; Region: PRK12862 381666004011 Malic enzyme, N-terminal domain; Region: malic; pfam00390 381666004012 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 381666004013 putative NAD(P) binding site [chemical binding]; other site 381666004014 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 381666004015 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666004016 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666004017 trimer interface [polypeptide binding]; other site 381666004018 eyelet of channel; other site 381666004019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 381666004020 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 381666004021 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 381666004022 active site 381666004023 catalytic site [active] 381666004024 tetramer interface [polypeptide binding]; other site 381666004025 xanthine permease; Region: pbuX; TIGR03173 381666004026 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666004027 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666004028 DNA-binding site [nucleotide binding]; DNA binding site 381666004029 FCD domain; Region: FCD; pfam07729 381666004030 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 381666004031 active site 381666004032 homotetramer interface [polypeptide binding]; other site 381666004033 Predicted membrane protein [Function unknown]; Region: COG3748 381666004034 Protein of unknown function (DUF989); Region: DUF989; pfam06181 381666004035 Cytochrome c; Region: Cytochrom_C; pfam00034 381666004036 Predicted membrane protein [Function unknown]; Region: COG2119 381666004037 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 381666004038 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 381666004039 Fatty acid desaturase; Region: FA_desaturase; pfam00487 381666004040 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 381666004041 putative di-iron ligands [ion binding]; other site 381666004042 guanine deaminase; Provisional; Region: PRK09228 381666004043 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 381666004044 active site 381666004045 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 381666004046 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 381666004047 active site 381666004048 purine riboside binding site [chemical binding]; other site 381666004049 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 381666004050 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 381666004051 XdhC Rossmann domain; Region: XdhC_C; pfam13478 381666004052 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 381666004053 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 381666004054 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666004055 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 381666004056 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 381666004057 catalytic loop [active] 381666004058 iron binding site [ion binding]; other site 381666004059 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666004060 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 381666004061 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666004062 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666004063 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 381666004064 putative substrate binding pocket [chemical binding]; other site 381666004065 putative dimerization interface [polypeptide binding]; other site 381666004066 PBP superfamily domain; Region: PBP_like_2; pfam12849 381666004067 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 381666004068 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 381666004069 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]; Region: COG1910 381666004070 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 381666004071 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 381666004072 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 381666004073 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 381666004074 apolar tunnel; other site 381666004075 heme binding site [chemical binding]; other site 381666004076 dimerization interface [polypeptide binding]; other site 381666004077 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 381666004078 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 381666004079 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666004080 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666004081 Bacterial transcriptional repressor; Region: TetR; pfam13972 381666004082 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 381666004083 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666004084 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 381666004085 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 381666004086 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 381666004087 putative active site [active] 381666004088 putative metal binding site [ion binding]; other site 381666004089 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 381666004090 RDD family; Region: RDD; pfam06271 381666004091 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 381666004092 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 381666004093 RNA polymerase factor sigma-70; Validated; Region: PRK09047 381666004094 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666004095 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 381666004096 DNA binding residues [nucleotide binding] 381666004097 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 381666004098 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666004099 PYR/PP interface [polypeptide binding]; other site 381666004100 dimer interface [polypeptide binding]; other site 381666004101 TPP binding site [chemical binding]; other site 381666004102 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 381666004103 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 381666004104 TPP-binding site [chemical binding]; other site 381666004105 dimer interface [polypeptide binding]; other site 381666004106 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 381666004107 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 381666004108 putative valine binding site [chemical binding]; other site 381666004109 dimer interface [polypeptide binding]; other site 381666004110 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 381666004111 ketol-acid reductoisomerase; Provisional; Region: PRK05479 381666004112 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 381666004113 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 381666004114 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 381666004115 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 381666004116 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 381666004117 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 381666004118 BON domain; Region: BON; pfam04972 381666004119 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 381666004120 2-isopropylmalate synthase; Validated; Region: PRK00915 381666004121 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 381666004122 active site 381666004123 catalytic residues [active] 381666004124 metal binding site [ion binding]; metal-binding site 381666004125 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 381666004126 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666004127 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 381666004128 putative ligand binding site [chemical binding]; other site 381666004129 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 381666004130 16S/18S rRNA binding site [nucleotide binding]; other site 381666004131 S13e-L30e interaction site [polypeptide binding]; other site 381666004132 25S rRNA binding site [nucleotide binding]; other site 381666004133 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 381666004134 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 381666004135 RNase E interface [polypeptide binding]; other site 381666004136 trimer interface [polypeptide binding]; other site 381666004137 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 381666004138 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 381666004139 RNase E interface [polypeptide binding]; other site 381666004140 trimer interface [polypeptide binding]; other site 381666004141 active site 381666004142 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 381666004143 putative nucleic acid binding region [nucleotide binding]; other site 381666004144 G-X-X-G motif; other site 381666004145 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 381666004146 RNA binding site [nucleotide binding]; other site 381666004147 domain interface; other site 381666004148 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 381666004149 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 381666004150 NAD(P) binding site [chemical binding]; other site 381666004151 triosephosphate isomerase; Provisional; Region: PRK14567 381666004152 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 381666004153 substrate binding site [chemical binding]; other site 381666004154 dimer interface [polypeptide binding]; other site 381666004155 catalytic triad [active] 381666004156 Preprotein translocase SecG subunit; Region: SecG; pfam03840 381666004157 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 381666004158 NADH dehydrogenase subunit B; Validated; Region: PRK06411 381666004159 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 381666004160 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 381666004161 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 381666004162 NADH dehydrogenase subunit D; Validated; Region: PRK06075 381666004163 NADH dehydrogenase subunit E; Validated; Region: PRK07539 381666004164 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 381666004165 putative dimer interface [polypeptide binding]; other site 381666004166 [2Fe-2S] cluster binding site [ion binding]; other site 381666004167 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 381666004168 SLBB domain; Region: SLBB; pfam10531 381666004169 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 381666004170 NADH dehydrogenase subunit G; Validated; Region: PRK09129 381666004171 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 381666004172 catalytic loop [active] 381666004173 iron binding site [ion binding]; other site 381666004174 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 381666004175 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 381666004176 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 381666004177 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 381666004178 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 381666004179 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 381666004180 4Fe-4S binding domain; Region: Fer4; cl02805 381666004181 4Fe-4S binding domain; Region: Fer4; pfam00037 381666004182 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 381666004183 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 381666004184 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 381666004185 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 381666004186 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 381666004187 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 381666004188 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 381666004189 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 381666004190 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 381666004191 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 381666004192 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 381666004193 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 381666004194 dimer interface [polypeptide binding]; other site 381666004195 ADP-ribose binding site [chemical binding]; other site 381666004196 active site 381666004197 nudix motif; other site 381666004198 metal binding site [ion binding]; metal-binding site 381666004199 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 381666004200 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666004201 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666004202 active site 381666004203 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666004204 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666004205 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666004206 active site 381666004207 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 381666004208 putative active site [active] 381666004209 putative catalytic site [active] 381666004210 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 381666004211 putative active site [active] 381666004212 putative catalytic site [active] 381666004213 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 381666004214 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 381666004215 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 381666004216 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 381666004217 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 381666004218 D-pathway; other site 381666004219 Putative ubiquinol binding site [chemical binding]; other site 381666004220 Low-spin heme (heme b) binding site [chemical binding]; other site 381666004221 Putative water exit pathway; other site 381666004222 Binuclear center (heme o3/CuB) [ion binding]; other site 381666004223 K-pathway; other site 381666004224 Putative proton exit pathway; other site 381666004225 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 381666004226 Subunit I/III interface [polypeptide binding]; other site 381666004227 Subunit III/IV interface [polypeptide binding]; other site 381666004228 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 381666004229 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666004230 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 381666004231 putative ligand binding site [chemical binding]; other site 381666004232 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 381666004233 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666004234 TM-ABC transporter signature motif; other site 381666004235 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 381666004236 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 381666004237 TM-ABC transporter signature motif; other site 381666004238 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 381666004239 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 381666004240 Walker A/P-loop; other site 381666004241 ATP binding site [chemical binding]; other site 381666004242 Q-loop/lid; other site 381666004243 ABC transporter signature motif; other site 381666004244 Walker B; other site 381666004245 D-loop; other site 381666004246 H-loop/switch region; other site 381666004247 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 381666004248 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 381666004249 Walker A/P-loop; other site 381666004250 ATP binding site [chemical binding]; other site 381666004251 Q-loop/lid; other site 381666004252 ABC transporter signature motif; other site 381666004253 Walker B; other site 381666004254 D-loop; other site 381666004255 H-loop/switch region; other site 381666004256 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 381666004257 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 381666004258 alpha-gamma subunit interface [polypeptide binding]; other site 381666004259 beta-gamma subunit interface [polypeptide binding]; other site 381666004260 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 381666004261 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 381666004262 gamma-beta subunit interface [polypeptide binding]; other site 381666004263 alpha-beta subunit interface [polypeptide binding]; other site 381666004264 urease subunit alpha; Reviewed; Region: ureC; PRK13207 381666004265 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 381666004266 subunit interactions [polypeptide binding]; other site 381666004267 active site 381666004268 flap region; other site 381666004269 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 381666004270 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 381666004271 dimer interface [polypeptide binding]; other site 381666004272 catalytic residues [active] 381666004273 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 381666004274 UreF; Region: UreF; pfam01730 381666004275 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 381666004276 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 381666004277 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 381666004278 non-specific DNA binding site [nucleotide binding]; other site 381666004279 salt bridge; other site 381666004280 sequence-specific DNA binding site [nucleotide binding]; other site 381666004281 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 381666004282 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 381666004283 C-terminal domain interface [polypeptide binding]; other site 381666004284 GSH binding site (G-site) [chemical binding]; other site 381666004285 dimer interface [polypeptide binding]; other site 381666004286 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 381666004287 N-terminal domain interface [polypeptide binding]; other site 381666004288 putative dimer interface [polypeptide binding]; other site 381666004289 active site 381666004290 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666004291 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 381666004292 FAD binding site [chemical binding]; other site 381666004293 substrate binding site [chemical binding]; other site 381666004294 catalytic base [active] 381666004295 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 381666004296 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666004297 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 381666004298 substrate binding pocket [chemical binding]; other site 381666004299 dimerization interface [polypeptide binding]; other site 381666004300 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 381666004301 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 381666004302 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666004303 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 381666004304 DNA binding residues [nucleotide binding] 381666004305 von Willebrand factor; Region: vWF_A; pfam12450 381666004306 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 381666004307 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 381666004308 metal ion-dependent adhesion site (MIDAS); other site 381666004309 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 381666004310 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 381666004311 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 381666004312 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 381666004313 putative active site [active] 381666004314 putative substrate binding site [chemical binding]; other site 381666004315 ATP binding site [chemical binding]; other site 381666004316 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 381666004317 catalytic core [active] 381666004318 enoyl-CoA hydratase; Provisional; Region: PRK07511 381666004319 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 381666004320 substrate binding site [chemical binding]; other site 381666004321 oxyanion hole (OAH) forming residues; other site 381666004322 trimer interface [polypeptide binding]; other site 381666004323 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 381666004324 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 381666004325 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666004326 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666004327 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666004328 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 381666004329 C-terminal domain interface [polypeptide binding]; other site 381666004330 GSH binding site (G-site) [chemical binding]; other site 381666004331 dimer interface [polypeptide binding]; other site 381666004332 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 381666004333 putative N-terminal domain interface [polypeptide binding]; other site 381666004334 putative dimer interface [polypeptide binding]; other site 381666004335 putative substrate binding pocket (H-site) [chemical binding]; other site 381666004336 methionine aminotransferase; Validated; Region: PRK09082 381666004337 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 381666004338 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666004339 homodimer interface [polypeptide binding]; other site 381666004340 catalytic residue [active] 381666004341 PIN domain; Region: PIN_3; cl17397 381666004342 hypothetical protein; Validated; Region: PRK02101 381666004343 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 381666004344 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 381666004345 putative active site [active] 381666004346 Zn binding site [ion binding]; other site 381666004347 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 381666004348 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666004349 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666004350 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666004351 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 381666004352 dimerization interface [polypeptide binding]; other site 381666004353 substrate binding pocket [chemical binding]; other site 381666004354 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666004355 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666004356 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 381666004357 putative dimerization interface [polypeptide binding]; other site 381666004358 benzoylformate decarboxylase; Reviewed; Region: PRK07092 381666004359 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666004360 PYR/PP interface [polypeptide binding]; other site 381666004361 dimer interface [polypeptide binding]; other site 381666004362 TPP binding site [chemical binding]; other site 381666004363 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 381666004364 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 381666004365 TPP-binding site [chemical binding]; other site 381666004366 dimer interface [polypeptide binding]; other site 381666004367 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 381666004368 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 381666004369 NAD(P) binding site [chemical binding]; other site 381666004370 catalytic residues [active] 381666004371 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666004372 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 381666004373 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 381666004374 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 381666004375 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 381666004376 Walker A motif; other site 381666004377 ATP binding site [chemical binding]; other site 381666004378 Walker B motif; other site 381666004379 arginine finger; other site 381666004380 Cytochrome c553 [Energy production and conversion]; Region: COG2863 381666004381 Cytochrome c; Region: Cytochrom_C; cl11414 381666004382 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 381666004383 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 381666004384 Methyltransferase domain; Region: Methyltransf_23; pfam13489 381666004385 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 381666004386 S-adenosylmethionine binding site [chemical binding]; other site 381666004387 protease TldD; Provisional; Region: tldD; PRK10735 381666004388 nitrilase; Region: PLN02798 381666004389 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 381666004390 putative active site [active] 381666004391 catalytic triad [active] 381666004392 dimer interface [polypeptide binding]; other site 381666004393 Predicted membrane protein [Function unknown]; Region: COG3164 381666004394 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 381666004395 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 381666004396 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 381666004397 metal binding triad; other site 381666004398 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 381666004399 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 381666004400 metal binding triad; other site 381666004401 Rhomboid family; Region: Rhomboid; cl11446 381666004402 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 381666004403 active site 381666004404 catalytic triad [active] 381666004405 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 381666004406 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 381666004407 Walker A/P-loop; other site 381666004408 ATP binding site [chemical binding]; other site 381666004409 Q-loop/lid; other site 381666004410 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 381666004411 ABC transporter signature motif; other site 381666004412 Walker B; other site 381666004413 D-loop; other site 381666004414 H-loop/switch region; other site 381666004415 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 381666004416 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 381666004417 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 381666004418 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 381666004419 ferrochelatase; Reviewed; Region: hemH; PRK00035 381666004420 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 381666004421 C-terminal domain interface [polypeptide binding]; other site 381666004422 active site 381666004423 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 381666004424 active site 381666004425 N-terminal domain interface [polypeptide binding]; other site 381666004426 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 381666004427 RNA binding surface [nucleotide binding]; other site 381666004428 GrpE; Region: GrpE; pfam01025 381666004429 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 381666004430 dimer interface [polypeptide binding]; other site 381666004431 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 381666004432 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 381666004433 catalytic residues [active] 381666004434 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 381666004435 substrate binding site [chemical binding]; other site 381666004436 dimerization interface [polypeptide binding]; other site 381666004437 active site 381666004438 calcium binding site [ion binding]; other site 381666004439 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 381666004440 EamA-like transporter family; Region: EamA; pfam00892 381666004441 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 381666004442 putative FMN binding site [chemical binding]; other site 381666004443 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 381666004444 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666004445 Connector enhancer of kinase suppressor of ras; Region: CRIC_ras_sig; pfam10534 381666004446 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 381666004447 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666004448 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666004449 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666004450 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 381666004451 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 381666004452 minor groove reading motif; other site 381666004453 helix-hairpin-helix signature motif; other site 381666004454 substrate binding pocket [chemical binding]; other site 381666004455 active site 381666004456 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 381666004457 ferredoxin; Provisional; Region: PRK08764 381666004458 Putative Fe-S cluster; Region: FeS; pfam04060 381666004459 4Fe-4S binding domain; Region: Fer4; pfam00037 381666004460 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666004461 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666004462 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 381666004463 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 381666004464 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 381666004465 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 381666004466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666004467 homodimer interface [polypeptide binding]; other site 381666004468 catalytic residue [active] 381666004469 excinuclease ABC subunit B; Provisional; Region: PRK05298 381666004470 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 381666004471 ATP binding site [chemical binding]; other site 381666004472 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 381666004473 nucleotide binding region [chemical binding]; other site 381666004474 ATP-binding site [chemical binding]; other site 381666004475 Ultra-violet resistance protein B; Region: UvrB; pfam12344 381666004476 UvrB/uvrC motif; Region: UVR; pfam02151 381666004477 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 381666004478 Low molecular weight phosphatase family; Region: LMWPc; cd00115 381666004479 active site 381666004480 Site-specific recombinase; Region: SpecificRecomb; pfam10136 381666004481 Predicted transcriptional regulator [Transcription]; Region: COG1959 381666004482 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 381666004483 cysteine desulfurase; Provisional; Region: PRK14012 381666004484 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 381666004485 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666004486 catalytic residue [active] 381666004487 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 381666004488 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 381666004489 trimerization site [polypeptide binding]; other site 381666004490 active site 381666004491 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 381666004492 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 381666004493 co-chaperone HscB; Provisional; Region: hscB; PRK03578 381666004494 DnaJ domain; Region: DnaJ; pfam00226 381666004495 HSP70 interaction site [polypeptide binding]; other site 381666004496 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 381666004497 chaperone protein HscA; Provisional; Region: hscA; PRK05183 381666004498 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 381666004499 nucleotide binding site [chemical binding]; other site 381666004500 putative NEF/HSP70 interaction site [polypeptide binding]; other site 381666004501 SBD interface [polypeptide binding]; other site 381666004502 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 381666004503 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 381666004504 catalytic loop [active] 381666004505 iron binding site [ion binding]; other site 381666004506 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 381666004507 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 381666004508 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 381666004509 dimer interface [polypeptide binding]; other site 381666004510 putative anticodon binding site; other site 381666004511 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 381666004512 motif 1; other site 381666004513 active site 381666004514 motif 2; other site 381666004515 motif 3; other site 381666004516 short chain dehydrogenase; Provisional; Region: PRK07023 381666004517 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666004518 NAD(P) binding site [chemical binding]; other site 381666004519 active site 381666004520 peptide chain release factor 2; Validated; Region: prfB; PRK00578 381666004521 This domain is found in peptide chain release factors; Region: PCRF; smart00937 381666004522 RF-1 domain; Region: RF-1; pfam00472 381666004523 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 381666004524 Peptidase family M23; Region: Peptidase_M23; pfam01551 381666004525 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 381666004526 DHH family; Region: DHH; pfam01368 381666004527 DHHA1 domain; Region: DHHA1; pfam02272 381666004528 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 381666004529 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 381666004530 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 381666004531 FtsX-like permease family; Region: FtsX; pfam02687 381666004532 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 381666004533 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 381666004534 Walker A/P-loop; other site 381666004535 ATP binding site [chemical binding]; other site 381666004536 Q-loop/lid; other site 381666004537 ABC transporter signature motif; other site 381666004538 Walker B; other site 381666004539 D-loop; other site 381666004540 H-loop/switch region; other site 381666004541 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 381666004542 active site 381666004543 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 381666004544 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 381666004545 Competence protein; Region: Competence; pfam03772 381666004546 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 381666004547 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 381666004548 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 381666004549 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 381666004550 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 381666004551 putative active site [active] 381666004552 phosphogluconate dehydratase; Validated; Region: PRK09054 381666004553 6-phosphogluconate dehydratase; Region: edd; TIGR01196 381666004554 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 381666004555 ATP-binding site [chemical binding]; other site 381666004556 Gluconate-6-phosphate binding site [chemical binding]; other site 381666004557 Shikimate kinase; Region: SKI; pfam01202 381666004558 Uncharacterized conserved protein [Function unknown]; Region: COG2308 381666004559 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 381666004560 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 381666004561 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 381666004562 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 381666004563 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 381666004564 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 381666004565 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 381666004566 active site 381666004567 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666004568 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 381666004569 catalytic site [active] 381666004570 CTP synthetase; Validated; Region: pyrG; PRK05380 381666004571 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 381666004572 Catalytic site [active] 381666004573 active site 381666004574 UTP binding site [chemical binding]; other site 381666004575 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 381666004576 active site 381666004577 putative oxyanion hole; other site 381666004578 catalytic triad [active] 381666004579 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 381666004580 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 381666004581 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 381666004582 enolase; Provisional; Region: eno; PRK00077 381666004583 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 381666004584 dimer interface [polypeptide binding]; other site 381666004585 metal binding site [ion binding]; metal-binding site 381666004586 substrate binding pocket [chemical binding]; other site 381666004587 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 381666004588 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 381666004589 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 381666004590 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 381666004591 dimerization interface [polypeptide binding]; other site 381666004592 domain crossover interface; other site 381666004593 redox-dependent activation switch; other site 381666004594 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 381666004595 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 381666004596 trimer interface [polypeptide binding]; other site 381666004597 putative metal binding site [ion binding]; other site 381666004598 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 381666004599 dinuclear metal binding motif [ion binding]; other site 381666004600 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 381666004601 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666004602 putative substrate translocation pore; other site 381666004603 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 381666004604 Beta-lactamase; Region: Beta-lactamase; pfam00144 381666004605 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666004606 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666004607 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 381666004608 putative dimerization interface [polypeptide binding]; other site 381666004609 putative effector binding pocket; other site 381666004610 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 381666004611 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 381666004612 active site 381666004613 acyl-activating enzyme (AAE) consensus motif; other site 381666004614 putative CoA binding site [chemical binding]; other site 381666004615 AMP binding site [chemical binding]; other site 381666004616 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 381666004617 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666004618 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 381666004619 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666004620 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 381666004621 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 381666004622 active site 381666004623 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 381666004624 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 381666004625 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 381666004626 Peptidase family M50; Region: Peptidase_M50; pfam02163 381666004627 active site 381666004628 putative substrate binding region [chemical binding]; other site 381666004629 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 381666004630 S-adenosylmethionine binding site [chemical binding]; other site 381666004631 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 381666004632 dihydrodipicolinate synthase; Region: dapA; TIGR00674 381666004633 dimer interface [polypeptide binding]; other site 381666004634 active site 381666004635 catalytic residue [active] 381666004636 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 381666004637 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 381666004638 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 381666004639 Uncharacterized conserved protein [Function unknown]; Region: COG2850 381666004640 Cupin-like domain; Region: Cupin_8; pfam13621 381666004641 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 381666004642 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 381666004643 MutS domain I; Region: MutS_I; pfam01624 381666004644 MutS domain II; Region: MutS_II; pfam05188 381666004645 MutS domain III; Region: MutS_III; pfam05192 381666004646 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 381666004647 Walker A/P-loop; other site 381666004648 ATP binding site [chemical binding]; other site 381666004649 Q-loop/lid; other site 381666004650 ABC transporter signature motif; other site 381666004651 Walker B; other site 381666004652 D-loop; other site 381666004653 H-loop/switch region; other site 381666004654 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 381666004655 Ligand Binding Site [chemical binding]; other site 381666004656 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 381666004657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 381666004658 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 381666004659 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 381666004660 active site 381666004661 dimerization interface [polypeptide binding]; other site 381666004662 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 381666004663 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 381666004664 serine O-acetyltransferase; Region: cysE; TIGR01172 381666004665 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 381666004666 trimer interface [polypeptide binding]; other site 381666004667 active site 381666004668 substrate binding site [chemical binding]; other site 381666004669 CoA binding site [chemical binding]; other site 381666004670 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 381666004671 putative active site [active] 381666004672 putative metal binding site [ion binding]; other site 381666004673 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 381666004674 substrate binding site [chemical binding]; other site 381666004675 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 381666004676 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 381666004677 substrate binding site [chemical binding]; other site 381666004678 Tetratricopeptide repeat; Region: TPR_16; pfam13432 381666004679 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 381666004680 binding surface 381666004681 TPR motif; other site 381666004682 TPR repeat; Region: TPR_11; pfam13414 381666004683 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 381666004684 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 381666004685 active site 381666004686 HIGH motif; other site 381666004687 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 381666004688 KMSKS motif; other site 381666004689 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 381666004690 tRNA binding surface [nucleotide binding]; other site 381666004691 anticodon binding site; other site 381666004692 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 381666004693 endonuclease III; Region: ENDO3c; smart00478 381666004694 minor groove reading motif; other site 381666004695 helix-hairpin-helix signature motif; other site 381666004696 substrate binding pocket [chemical binding]; other site 381666004697 active site 381666004698 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 381666004699 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 381666004700 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 381666004701 Ligand Binding Site [chemical binding]; other site 381666004702 TilS substrate binding domain; Region: TilS; pfam09179 381666004703 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 381666004704 aspartate kinase; Reviewed; Region: PRK06635 381666004705 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 381666004706 putative nucleotide binding site [chemical binding]; other site 381666004707 putative catalytic residues [active] 381666004708 putative Mg ion binding site [ion binding]; other site 381666004709 putative aspartate binding site [chemical binding]; other site 381666004710 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 381666004711 putative allosteric regulatory site; other site 381666004712 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 381666004713 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666004714 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666004715 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 381666004716 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 381666004717 active site 381666004718 oxalacetate binding site [chemical binding]; other site 381666004719 citrylCoA binding site [chemical binding]; other site 381666004720 coenzyme A binding site [chemical binding]; other site 381666004721 catalytic triad [active] 381666004722 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 381666004723 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666004724 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666004725 acyl-activating enzyme (AAE) consensus motif; other site 381666004726 acyl-activating enzyme (AAE) consensus motif; other site 381666004727 AMP binding site [chemical binding]; other site 381666004728 active site 381666004729 CoA binding site [chemical binding]; other site 381666004730 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 381666004731 active site 381666004732 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 381666004733 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666004734 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666004735 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666004736 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666004737 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 381666004738 putative dimerization interface [polypeptide binding]; other site 381666004739 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666004740 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666004741 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 381666004742 active site 381666004743 catalytic residues [active] 381666004744 metal binding site [ion binding]; metal-binding site 381666004745 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 381666004746 substrate binding site [chemical binding]; other site 381666004747 ligand binding site [chemical binding]; other site 381666004748 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 381666004749 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 381666004750 substrate binding site [chemical binding]; other site 381666004751 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666004752 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 381666004753 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666004754 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 381666004755 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 381666004756 TM-ABC transporter signature motif; other site 381666004757 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 381666004758 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 381666004759 TM-ABC transporter signature motif; other site 381666004760 Probable transposase; Region: OrfB_IS605; pfam01385 381666004761 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 381666004762 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 381666004763 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666004764 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 381666004765 Walker A/P-loop; other site 381666004766 ATP binding site [chemical binding]; other site 381666004767 Q-loop/lid; other site 381666004768 ABC transporter signature motif; other site 381666004769 Walker B; other site 381666004770 D-loop; other site 381666004771 H-loop/switch region; other site 381666004772 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666004773 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 381666004774 Walker A/P-loop; other site 381666004775 ATP binding site [chemical binding]; other site 381666004776 Q-loop/lid; other site 381666004777 ABC transporter signature motif; other site 381666004778 Walker B; other site 381666004779 D-loop; other site 381666004780 H-loop/switch region; other site 381666004781 YCII-related domain; Region: YCII; cl00999 381666004782 CHASE domain; Region: CHASE; pfam03924 381666004783 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 381666004784 putative active site [active] 381666004785 heme pocket [chemical binding]; other site 381666004786 GAF domain; Region: GAF_2; pfam13185 381666004787 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 381666004788 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666004789 metal binding site [ion binding]; metal-binding site 381666004790 active site 381666004791 I-site; other site 381666004792 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 381666004793 Uncharacterized conserved protein [Function unknown]; Region: COG4278 381666004794 pyruvate carboxylase; Reviewed; Region: PRK12999 381666004795 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666004796 ATP-grasp domain; Region: ATP-grasp_4; cl17255 381666004797 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 381666004798 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 381666004799 active site 381666004800 catalytic residues [active] 381666004801 metal binding site [ion binding]; metal-binding site 381666004802 homodimer binding site [polypeptide binding]; other site 381666004803 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 381666004804 carboxyltransferase (CT) interaction site; other site 381666004805 biotinylation site [posttranslational modification]; other site 381666004806 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 381666004807 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 381666004808 Sulfate transporter family; Region: Sulfate_transp; pfam00916 381666004809 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 381666004810 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666004811 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13029 381666004812 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 381666004813 dimer interface [polypeptide binding]; other site 381666004814 PYR/PP interface [polypeptide binding]; other site 381666004815 TPP binding site [chemical binding]; other site 381666004816 substrate binding site [chemical binding]; other site 381666004817 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 381666004818 TPP-binding site [chemical binding]; other site 381666004819 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 381666004820 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 381666004821 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666004822 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666004823 DNA-binding site [nucleotide binding]; DNA binding site 381666004824 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 381666004825 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 381666004826 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 381666004827 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 381666004828 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 381666004829 NAD(P) binding site [chemical binding]; other site 381666004830 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 381666004831 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666004832 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 381666004833 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 381666004834 ligand binding site [chemical binding]; other site 381666004835 homodimer interface [polypeptide binding]; other site 381666004836 NAD(P) binding site [chemical binding]; other site 381666004837 trimer interface B [polypeptide binding]; other site 381666004838 trimer interface A [polypeptide binding]; other site 381666004839 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 381666004840 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 381666004841 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 381666004842 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666004843 classical (c) SDRs; Region: SDR_c; cd05233 381666004844 NAD(P) binding site [chemical binding]; other site 381666004845 active site 381666004846 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 381666004847 Phosphotransferase enzyme family; Region: APH; pfam01636 381666004848 putative active site [active] 381666004849 putative substrate binding site [chemical binding]; other site 381666004850 ATP binding site [chemical binding]; other site 381666004851 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 381666004852 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 381666004853 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 381666004854 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 381666004855 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 381666004856 Bacterial transcriptional activator domain; Region: BTAD; smart01043 381666004857 cyclase homology domain; Region: CHD; cd07302 381666004858 nucleotidyl binding site; other site 381666004859 metal binding site [ion binding]; metal-binding site 381666004860 dimer interface [polypeptide binding]; other site 381666004861 AAA ATPase domain; Region: AAA_16; pfam13191 381666004862 Tetratricopeptide repeat; Region: TPR_12; pfam13424 381666004863 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 381666004864 binding surface 381666004865 TPR motif; other site 381666004866 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 381666004867 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 381666004868 catalytic residues [active] 381666004869 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 381666004870 active site 381666004871 zinc binding site [ion binding]; other site 381666004872 GYD domain; Region: GYD; cl01743 381666004873 Predicted GTPase [General function prediction only]; Region: DRG; COG1163 381666004874 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 381666004875 G1 box; other site 381666004876 GTP/Mg2+ binding site [chemical binding]; other site 381666004877 G2 box; other site 381666004878 Switch I region; other site 381666004879 G3 box; other site 381666004880 Switch II region; other site 381666004881 G4 box; other site 381666004882 G5 box; other site 381666004883 TGS_DRG_C: DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2. DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it...; Region: TGS_DRG_C; cd01666 381666004884 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 381666004885 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 381666004886 Pirin-related protein [General function prediction only]; Region: COG1741 381666004887 Pirin; Region: Pirin; pfam02678 381666004888 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 381666004889 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 381666004890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666004891 NAD(P) binding site [chemical binding]; other site 381666004892 active site 381666004893 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 381666004894 active site 381666004895 catalytic site [active] 381666004896 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 381666004897 active site 381666004898 catalytic site [active] 381666004899 lipid-transfer protein; Provisional; Region: PRK08256 381666004900 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 381666004901 active site 381666004902 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666004903 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666004904 active site 381666004905 AAA domain; Region: AAA_22; pfam13401 381666004906 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666004907 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 381666004908 DNA binding residues [nucleotide binding] 381666004909 dimerization interface [polypeptide binding]; other site 381666004910 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666004911 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666004912 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 381666004913 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 381666004914 acyl-activating enzyme (AAE) consensus motif; other site 381666004915 putative AMP binding site [chemical binding]; other site 381666004916 putative active site [active] 381666004917 putative CoA binding site [chemical binding]; other site 381666004918 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 381666004919 DUF35 OB-fold domain; Region: DUF35; pfam01796 381666004920 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 381666004921 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 381666004922 active site 381666004923 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666004924 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666004925 DNA-binding site [nucleotide binding]; DNA binding site 381666004926 UTRA domain; Region: UTRA; pfam07702 381666004927 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 381666004928 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666004929 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666004930 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 381666004931 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 381666004932 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 381666004933 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 381666004934 dimer interface [polypeptide binding]; other site 381666004935 conserved gate region; other site 381666004936 putative PBP binding loops; other site 381666004937 ABC-ATPase subunit interface; other site 381666004938 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 381666004939 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 381666004940 putative PBP binding loops; other site 381666004941 dimer interface [polypeptide binding]; other site 381666004942 ABC-ATPase subunit interface; other site 381666004943 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 381666004944 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666004945 Walker A/P-loop; other site 381666004946 ATP binding site [chemical binding]; other site 381666004947 Q-loop/lid; other site 381666004948 ABC transporter signature motif; other site 381666004949 Walker B; other site 381666004950 D-loop; other site 381666004951 H-loop/switch region; other site 381666004952 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666004953 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 381666004954 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666004955 Walker A/P-loop; other site 381666004956 ATP binding site [chemical binding]; other site 381666004957 Q-loop/lid; other site 381666004958 ABC transporter signature motif; other site 381666004959 Walker B; other site 381666004960 D-loop; other site 381666004961 H-loop/switch region; other site 381666004962 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666004963 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666004964 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666004965 trimer interface [polypeptide binding]; other site 381666004966 eyelet of channel; other site 381666004967 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 381666004968 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666004969 FAD binding domain; Region: FAD_binding_4; pfam01565 381666004970 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 381666004971 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 381666004972 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 381666004973 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 381666004974 Protein of unknown function (DUF962); Region: DUF962; cl01879 381666004975 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666004976 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 381666004977 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 381666004978 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 381666004979 homodimer interface [polypeptide binding]; other site 381666004980 substrate-cofactor binding pocket; other site 381666004981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666004982 catalytic residue [active] 381666004983 FOG: CBS domain [General function prediction only]; Region: COG0517 381666004984 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_12; cd04625 381666004985 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 381666004986 putative substrate translocation pore; other site 381666004987 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 381666004988 putative acyl-acceptor binding pocket; other site 381666004989 GST_N family, Metaxin subfamily, Metaxin-like proteins; a heterogenous group of proteins, predominantly uncharacterized, with similarity to metaxins and GSTs. Metaxin 1 is a component of a preprotein import complex of the mitochondrial outer membrane. It...; Region: GST_N_Metaxin_like; cd03080 381666004990 putative C-terminal domain interface [polypeptide binding]; other site 381666004991 putative GSH binding site [chemical binding]; other site 381666004992 putative dimer interface [polypeptide binding]; other site 381666004993 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 381666004994 putative N-terminal domain interface [polypeptide binding]; other site 381666004995 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 381666004996 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 381666004997 Tetramer interface [polypeptide binding]; other site 381666004998 active site 381666004999 FMN-binding site [chemical binding]; other site 381666005000 MFS_1 like family; Region: MFS_1_like; pfam12832 381666005001 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 381666005002 hydroxyglutarate oxidase; Provisional; Region: PRK11728 381666005003 Predicted dehydrogenase [General function prediction only]; Region: COG0579 381666005004 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666005005 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666005006 DNA-binding site [nucleotide binding]; DNA binding site 381666005007 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 381666005008 Flagellar protein YcgR; Region: YcgR_2; pfam12945 381666005009 PilZ domain; Region: PilZ; pfam07238 381666005010 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 381666005011 Lipase (class 2); Region: Lipase_2; pfam01674 381666005012 lipase chaperone; Provisional; Region: PRK01294 381666005013 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 381666005014 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 381666005015 hydroxyglutarate oxidase; Provisional; Region: PRK11728 381666005016 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 381666005017 short chain dehydrogenase; Provisional; Region: PRK06949 381666005018 classical (c) SDRs; Region: SDR_c; cd05233 381666005019 NAD(P) binding site [chemical binding]; other site 381666005020 active site 381666005021 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 381666005022 DctM-like transporters; Region: DctM; pfam06808 381666005023 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 381666005024 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 381666005025 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 381666005026 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 381666005027 active site 381666005028 PAS domain; Region: PAS_9; pfam13426 381666005029 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 381666005030 putative active site [active] 381666005031 heme pocket [chemical binding]; other site 381666005032 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 381666005033 DNA binding residues [nucleotide binding] 381666005034 dimerization interface [polypeptide binding]; other site 381666005035 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 381666005036 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 381666005037 Predicted metal-binding protein [General function prediction only]; Region: COG3019 381666005038 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 381666005039 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 381666005040 NAD binding site [chemical binding]; other site 381666005041 homotetramer interface [polypeptide binding]; other site 381666005042 homodimer interface [polypeptide binding]; other site 381666005043 substrate binding site [chemical binding]; other site 381666005044 active site 381666005045 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666005046 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 381666005047 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 381666005048 homotrimer interaction site [polypeptide binding]; other site 381666005049 putative active site [active] 381666005050 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 381666005051 HD domain; Region: HD_4; pfam13328 381666005052 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 381666005053 synthetase active site [active] 381666005054 NTP binding site [chemical binding]; other site 381666005055 metal binding site [ion binding]; metal-binding site 381666005056 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 381666005057 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 381666005058 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 381666005059 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 381666005060 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 381666005061 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 381666005062 active site 381666005063 dimer interface [polypeptide binding]; other site 381666005064 motif 1; other site 381666005065 motif 2; other site 381666005066 motif 3; other site 381666005067 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 381666005068 anticodon binding site; other site 381666005069 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 381666005070 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 381666005071 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 381666005072 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 381666005073 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 381666005074 23S rRNA binding site [nucleotide binding]; other site 381666005075 L21 binding site [polypeptide binding]; other site 381666005076 L13 binding site [polypeptide binding]; other site 381666005077 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 381666005078 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 381666005079 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 381666005080 dimer interface [polypeptide binding]; other site 381666005081 motif 1; other site 381666005082 active site 381666005083 motif 2; other site 381666005084 motif 3; other site 381666005085 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 381666005086 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 381666005087 putative tRNA-binding site [nucleotide binding]; other site 381666005088 B3/4 domain; Region: B3_4; pfam03483 381666005089 tRNA synthetase B5 domain; Region: B5; smart00874 381666005090 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 381666005091 dimer interface [polypeptide binding]; other site 381666005092 motif 1; other site 381666005093 motif 3; other site 381666005094 motif 2; other site 381666005095 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 381666005096 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 381666005097 IHF - DNA interface [nucleotide binding]; other site 381666005098 IHF dimer interface [polypeptide binding]; other site 381666005099 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 381666005100 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 381666005101 DNA binding residues [nucleotide binding] 381666005102 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 381666005103 Protein of unknown function (DUF497); Region: DUF497; pfam04365 381666005104 Uncharacterized conserved protein [Function unknown]; Region: COG3542 381666005105 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 381666005106 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 381666005107 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 381666005108 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 381666005109 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 381666005110 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666005111 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666005112 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666005113 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 381666005114 dimerization interface [polypeptide binding]; other site 381666005115 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 381666005116 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 381666005117 active site 381666005118 putative substrate binding pocket [chemical binding]; other site 381666005119 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 381666005120 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 381666005121 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 381666005122 Sulfate transporter family; Region: Sulfate_transp; pfam00916 381666005123 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 381666005124 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 381666005125 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666005126 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 381666005127 putative catalytic site [active] 381666005128 putative phosphate binding site [ion binding]; other site 381666005129 active site 381666005130 metal binding site A [ion binding]; metal-binding site 381666005131 DNA binding site [nucleotide binding] 381666005132 putative AP binding site [nucleotide binding]; other site 381666005133 putative metal binding site B [ion binding]; other site 381666005134 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 381666005135 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 381666005136 active site 381666005137 Zn binding site [ion binding]; other site 381666005138 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 381666005139 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 381666005140 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 381666005141 homodimer interface [polypeptide binding]; other site 381666005142 NADP binding site [chemical binding]; other site 381666005143 substrate binding site [chemical binding]; other site 381666005144 Predicted membrane protein [Function unknown]; Region: COG3235 381666005145 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 381666005146 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 381666005147 active site 381666005148 phosphorylation site [posttranslational modification] 381666005149 intermolecular recognition site; other site 381666005150 dimerization interface [polypeptide binding]; other site 381666005151 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 381666005152 DNA binding residues [nucleotide binding] 381666005153 dimerization interface [polypeptide binding]; other site 381666005154 PAS domain S-box; Region: sensory_box; TIGR00229 381666005155 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 381666005156 putative active site [active] 381666005157 heme pocket [chemical binding]; other site 381666005158 PAS domain S-box; Region: sensory_box; TIGR00229 381666005159 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 381666005160 dimer interface [polypeptide binding]; other site 381666005161 phosphorylation site [posttranslational modification] 381666005162 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 381666005163 ATP binding site [chemical binding]; other site 381666005164 Mg2+ binding site [ion binding]; other site 381666005165 G-X-G motif; other site 381666005166 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 381666005167 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 381666005168 dimer interface [polypeptide binding]; other site 381666005169 TPP-binding site [chemical binding]; other site 381666005170 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 381666005171 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 381666005172 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 381666005173 E3 interaction surface; other site 381666005174 lipoyl attachment site [posttranslational modification]; other site 381666005175 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 381666005176 E3 interaction surface; other site 381666005177 lipoyl attachment site [posttranslational modification]; other site 381666005178 e3 binding domain; Region: E3_binding; pfam02817 381666005179 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 381666005180 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 381666005181 active site 381666005182 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 381666005183 E3 interaction surface; other site 381666005184 lipoyl attachment site [posttranslational modification]; other site 381666005185 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 381666005186 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666005187 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666005188 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 381666005189 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 381666005190 Ligand Binding Site [chemical binding]; other site 381666005191 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 381666005192 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 381666005193 FeS/SAM binding site; other site 381666005194 Phasin protein; Region: Phasin_2; pfam09361 381666005195 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 381666005196 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 381666005197 putative active site [active] 381666005198 Zn binding site [ion binding]; other site 381666005199 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 381666005200 active site 381666005201 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 381666005202 putative FMN binding site [chemical binding]; other site 381666005203 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 381666005204 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 381666005205 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666005206 FAD binding domain; Region: FAD_binding_4; pfam01565 381666005207 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666005208 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666005209 DNA-binding site [nucleotide binding]; DNA binding site 381666005210 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666005211 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666005212 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666005213 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 381666005214 Cysteine-rich domain; Region: CCG; pfam02754 381666005215 Cysteine-rich domain; Region: CCG; pfam02754 381666005216 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 381666005217 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 381666005218 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 381666005219 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 381666005220 F420-dependent oxidoreductase, G6PDH family; Region: F420_G6P_family; TIGR03557 381666005221 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 381666005222 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666005223 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 381666005224 putative dimerization interface [polypeptide binding]; other site 381666005225 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 381666005226 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 381666005227 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 381666005228 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666005229 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 381666005230 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666005231 Walker A/P-loop; other site 381666005232 ATP binding site [chemical binding]; other site 381666005233 Q-loop/lid; other site 381666005234 ABC transporter signature motif; other site 381666005235 Walker B; other site 381666005236 D-loop; other site 381666005237 H-loop/switch region; other site 381666005238 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666005239 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 381666005240 TM-ABC transporter signature motif; other site 381666005241 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 381666005242 zinc binding site [ion binding]; other site 381666005243 putative ligand binding site [chemical binding]; other site 381666005244 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 381666005245 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 381666005246 active site 381666005247 catalytic tetrad [active] 381666005248 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 381666005249 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 381666005250 quinone interaction residues [chemical binding]; other site 381666005251 active site 381666005252 catalytic residues [active] 381666005253 FMN binding site [chemical binding]; other site 381666005254 substrate binding site [chemical binding]; other site 381666005255 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 381666005256 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 381666005257 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 381666005258 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 381666005259 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 381666005260 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 381666005261 nudix motif; other site 381666005262 RES domain; Region: RES; smart00953 381666005263 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 381666005264 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 381666005265 4Fe-4S binding domain; Region: Fer4; pfam00037 381666005266 4Fe-4S binding domain; Region: Fer4; pfam00037 381666005267 These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer...; Region: CYPOR_like_FNR; cd06208 381666005268 dimerization interface [polypeptide binding]; other site 381666005269 FAD binding pocket [chemical binding]; other site 381666005270 FAD binding motif [chemical binding]; other site 381666005271 catalytic residues [active] 381666005272 NAD binding pocket [chemical binding]; other site 381666005273 phosphate binding motif [ion binding]; other site 381666005274 beta-alpha-beta structure motif; other site 381666005275 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 381666005276 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 381666005277 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 381666005278 substrate binding site [chemical binding]; other site 381666005279 oxyanion hole (OAH) forming residues; other site 381666005280 trimer interface [polypeptide binding]; other site 381666005281 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 381666005282 non-specific DNA binding site [nucleotide binding]; other site 381666005283 salt bridge; other site 381666005284 sequence-specific DNA binding site [nucleotide binding]; other site 381666005285 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 381666005286 Shikimate kinase; Region: SKI; pfam01202 381666005287 ADP binding site [chemical binding]; other site 381666005288 magnesium binding site [ion binding]; other site 381666005289 putative shikimate binding site; other site 381666005290 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 381666005291 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 381666005292 dimer interface [polypeptide binding]; other site 381666005293 acyl-activating enzyme (AAE) consensus motif; other site 381666005294 putative active site [active] 381666005295 putative AMP binding site [chemical binding]; other site 381666005296 putative CoA binding site [chemical binding]; other site 381666005297 chemical substrate binding site [chemical binding]; other site 381666005298 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666005299 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666005300 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 381666005301 putative ligand binding site [chemical binding]; other site 381666005302 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666005303 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 381666005304 TM-ABC transporter signature motif; other site 381666005305 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 381666005306 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 381666005307 TM-ABC transporter signature motif; other site 381666005308 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666005309 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 381666005310 Walker A/P-loop; other site 381666005311 ATP binding site [chemical binding]; other site 381666005312 Q-loop/lid; other site 381666005313 ABC transporter signature motif; other site 381666005314 Walker B; other site 381666005315 D-loop; other site 381666005316 H-loop/switch region; other site 381666005317 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666005318 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 381666005319 Walker A/P-loop; other site 381666005320 ATP binding site [chemical binding]; other site 381666005321 Q-loop/lid; other site 381666005322 ABC transporter signature motif; other site 381666005323 Walker B; other site 381666005324 D-loop; other site 381666005325 H-loop/switch region; other site 381666005326 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 381666005327 potassium uptake protein; Region: kup; TIGR00794 381666005328 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 381666005329 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666005330 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 381666005331 DNA binding residues [nucleotide binding] 381666005332 dimerization interface [polypeptide binding]; other site 381666005333 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 381666005334 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 381666005335 putative dimer interface [polypeptide binding]; other site 381666005336 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 381666005337 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 381666005338 putative dimer interface [polypeptide binding]; other site 381666005339 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 381666005340 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 381666005341 NAD binding site [chemical binding]; other site 381666005342 substrate binding site [chemical binding]; other site 381666005343 active site 381666005344 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 381666005345 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 381666005346 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 381666005347 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 381666005348 active site 381666005349 phosphorylation site [posttranslational modification] 381666005350 intermolecular recognition site; other site 381666005351 dimerization interface [polypeptide binding]; other site 381666005352 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 381666005353 DNA binding site [nucleotide binding] 381666005354 sensor protein QseC; Provisional; Region: PRK10337 381666005355 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 381666005356 dimer interface [polypeptide binding]; other site 381666005357 phosphorylation site [posttranslational modification] 381666005358 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 381666005359 ATP binding site [chemical binding]; other site 381666005360 G-X-G motif; other site 381666005361 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 381666005362 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 381666005363 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 381666005364 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 381666005365 RNA binding site [nucleotide binding]; other site 381666005366 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 381666005367 DEAD/DEAH box helicase; Region: DEAD; pfam00270 381666005368 DEAD_2; Region: DEAD_2; pfam06733 381666005369 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 381666005370 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 381666005371 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 381666005372 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 381666005373 RNA binding surface [nucleotide binding]; other site 381666005374 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 381666005375 active site 381666005376 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 381666005377 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 381666005378 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 381666005379 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 381666005380 putative acyltransferase; Provisional; Region: PRK05790 381666005381 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 381666005382 dimer interface [polypeptide binding]; other site 381666005383 active site 381666005384 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 381666005385 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 381666005386 NAD(P) binding site [chemical binding]; other site 381666005387 homotetramer interface [polypeptide binding]; other site 381666005388 homodimer interface [polypeptide binding]; other site 381666005389 active site 381666005390 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 381666005391 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 381666005392 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 381666005393 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 381666005394 non-specific DNA binding site [nucleotide binding]; other site 381666005395 sequence-specific DNA binding site [nucleotide binding]; other site 381666005396 salt bridge; other site 381666005397 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 381666005398 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 381666005399 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 381666005400 FMN binding site [chemical binding]; other site 381666005401 active site 381666005402 catalytic residues [active] 381666005403 substrate binding site [chemical binding]; other site 381666005404 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 381666005405 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 381666005406 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 381666005407 FeS/SAM binding site; other site 381666005408 beta-ketothiolase; Provisional; Region: PRK09051 381666005409 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 381666005410 dimer interface [polypeptide binding]; other site 381666005411 active site 381666005412 cystathionine beta-lyase; Provisional; Region: PRK07050 381666005413 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 381666005414 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666005415 catalytic residue [active] 381666005416 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 381666005417 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 381666005418 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 381666005419 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 381666005420 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 381666005421 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 381666005422 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 381666005423 motif II; other site 381666005424 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 381666005425 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 381666005426 metal binding site [ion binding]; metal-binding site 381666005427 putative dimer interface [polypeptide binding]; other site 381666005428 acetylornithine deacetylase; Provisional; Region: PRK07522 381666005429 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 381666005430 metal binding site [ion binding]; metal-binding site 381666005431 putative dimer interface [polypeptide binding]; other site 381666005432 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 381666005433 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 381666005434 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 381666005435 ATP binding site [chemical binding]; other site 381666005436 putative Mg++ binding site [ion binding]; other site 381666005437 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 381666005438 nucleotide binding region [chemical binding]; other site 381666005439 ATP-binding site [chemical binding]; other site 381666005440 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 381666005441 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 381666005442 substrate binding site; other site 381666005443 dimer interface; other site 381666005444 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 381666005445 homotrimer interaction site [polypeptide binding]; other site 381666005446 zinc binding site [ion binding]; other site 381666005447 CDP-binding sites; other site 381666005448 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666005449 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 381666005450 Coenzyme A binding pocket [chemical binding]; other site 381666005451 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 381666005452 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 381666005453 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 381666005454 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 381666005455 dimer interface [polypeptide binding]; other site 381666005456 decamer (pentamer of dimers) interface [polypeptide binding]; other site 381666005457 catalytic triad [active] 381666005458 peroxidatic and resolving cysteines [active] 381666005459 citrate-proton symporter; Provisional; Region: PRK15075 381666005460 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 381666005461 putative substrate translocation pore; other site 381666005462 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 381666005463 dimerization interface [polypeptide binding]; other site 381666005464 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 381666005465 ATP binding site [chemical binding]; other site 381666005466 Mg2+ binding site [ion binding]; other site 381666005467 G-X-G motif; other site 381666005468 osmolarity response regulator; Provisional; Region: ompR; PRK09468 381666005469 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 381666005470 active site 381666005471 phosphorylation site [posttranslational modification] 381666005472 intermolecular recognition site; other site 381666005473 dimerization interface [polypeptide binding]; other site 381666005474 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 381666005475 DNA binding site [nucleotide binding] 381666005476 allantoate amidohydrolase; Reviewed; Region: PRK12893 381666005477 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 381666005478 active site 381666005479 metal binding site [ion binding]; metal-binding site 381666005480 dimer interface [polypeptide binding]; other site 381666005481 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 381666005482 active site lid residues [active] 381666005483 substrate binding pocket [chemical binding]; other site 381666005484 catalytic residues [active] 381666005485 substrate-Mg2+ binding site; other site 381666005486 aspartate-rich region 1; other site 381666005487 aspartate-rich region 2; other site 381666005488 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666005489 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666005490 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666005491 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 381666005492 amidase; Provisional; Region: PRK08310 381666005493 indole-3-acetamide amidohydrolase; Region: PLN02722 381666005494 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 381666005495 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666005496 Walker A/P-loop; other site 381666005497 ATP binding site [chemical binding]; other site 381666005498 Q-loop/lid; other site 381666005499 ABC transporter signature motif; other site 381666005500 Walker B; other site 381666005501 D-loop; other site 381666005502 H-loop/switch region; other site 381666005503 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666005504 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 381666005505 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666005506 Walker A/P-loop; other site 381666005507 ATP binding site [chemical binding]; other site 381666005508 Q-loop/lid; other site 381666005509 ABC transporter signature motif; other site 381666005510 Walker B; other site 381666005511 D-loop; other site 381666005512 H-loop/switch region; other site 381666005513 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 381666005514 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 381666005515 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 381666005516 dimer interface [polypeptide binding]; other site 381666005517 conserved gate region; other site 381666005518 putative PBP binding loops; other site 381666005519 ABC-ATPase subunit interface; other site 381666005520 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 381666005521 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 381666005522 dimer interface [polypeptide binding]; other site 381666005523 conserved gate region; other site 381666005524 putative PBP binding loops; other site 381666005525 ABC-ATPase subunit interface; other site 381666005526 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 381666005527 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_8; cd08495 381666005528 allantoate amidohydrolase; Reviewed; Region: PRK12893 381666005529 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 381666005530 active site 381666005531 metal binding site [ion binding]; metal-binding site 381666005532 dimer interface [polypeptide binding]; other site 381666005533 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666005534 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666005535 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666005536 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 381666005537 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 381666005538 Uncharacterized conserved protein [Function unknown]; Region: COG4121 381666005539 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 381666005540 trigger factor; Provisional; Region: tig; PRK01490 381666005541 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 381666005542 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 381666005543 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 381666005544 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 381666005545 oligomer interface [polypeptide binding]; other site 381666005546 active site residues [active] 381666005547 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 381666005548 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 381666005549 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 381666005550 Walker A motif; other site 381666005551 ATP binding site [chemical binding]; other site 381666005552 Walker B motif; other site 381666005553 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 381666005554 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 381666005555 Found in ATP-dependent protease La (LON); Region: LON; smart00464 381666005556 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 381666005557 Walker A motif; other site 381666005558 ATP binding site [chemical binding]; other site 381666005559 Walker B motif; other site 381666005560 arginine finger; other site 381666005561 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 381666005562 Predicted membrane protein [Function unknown]; Region: COG2323 381666005563 Competence-damaged protein; Region: CinA; pfam02464 381666005564 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 381666005565 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 381666005566 active site 381666005567 DNA binding site [nucleotide binding] 381666005568 Int/Topo IB signature motif; other site 381666005569 catalytic residues [active] 381666005570 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666005571 classical (c) SDRs; Region: SDR_c; cd05233 381666005572 NAD(P) binding site [chemical binding]; other site 381666005573 active site 381666005574 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666005575 CoA binding site [chemical binding]; other site 381666005576 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666005577 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666005578 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 381666005579 dimerization interface [polypeptide binding]; other site 381666005580 substrate binding pocket [chemical binding]; other site 381666005581 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 381666005582 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 381666005583 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666005584 homodimer interface [polypeptide binding]; other site 381666005585 catalytic residue [active] 381666005586 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666005587 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 381666005588 NAD(P) binding site [chemical binding]; other site 381666005589 catalytic residues [active] 381666005590 tricarballylate dehydrogenase; Validated; Region: PRK08274 381666005591 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 381666005592 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666005593 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 381666005594 SurA N-terminal domain; Region: SurA_N_3; cl07813 381666005595 periplasmic folding chaperone; Provisional; Region: PRK10788 381666005596 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 381666005597 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 381666005598 active site 381666005599 catalytic triad [active] 381666005600 oxyanion hole [active] 381666005601 switch loop; other site 381666005602 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 381666005603 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 381666005604 Walker A/P-loop; other site 381666005605 ATP binding site [chemical binding]; other site 381666005606 Q-loop/lid; other site 381666005607 ABC transporter signature motif; other site 381666005608 Walker B; other site 381666005609 D-loop; other site 381666005610 H-loop/switch region; other site 381666005611 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 381666005612 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 381666005613 active site 381666005614 dimer interface [polypeptide binding]; other site 381666005615 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 381666005616 dimer interface [polypeptide binding]; other site 381666005617 active site 381666005618 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 381666005619 EamA-like transporter family; Region: EamA; cl17759 381666005620 Uncharacterized conserved protein [Function unknown]; Region: COG0062 381666005621 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 381666005622 putative substrate binding site [chemical binding]; other site 381666005623 putative ATP binding site [chemical binding]; other site 381666005624 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 381666005625 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666005626 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 381666005627 DctM-like transporters; Region: DctM; pfam06808 381666005628 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 381666005629 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 381666005630 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 381666005631 amidase; Provisional; Region: PRK07056 381666005632 Amidase; Region: Amidase; cl11426 381666005633 MarR family; Region: MarR_2; cl17246 381666005634 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 381666005635 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 381666005636 dimerization interface [polypeptide binding]; other site 381666005637 ATP binding site [chemical binding]; other site 381666005638 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 381666005639 dimerization interface [polypeptide binding]; other site 381666005640 ATP binding site [chemical binding]; other site 381666005641 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 381666005642 putative active site [active] 381666005643 catalytic triad [active] 381666005644 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 381666005645 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 381666005646 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 381666005647 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 381666005648 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 381666005649 intracellular septation protein A; Reviewed; Region: PRK00259 381666005650 methionine sulfoxide reductase B; Provisional; Region: PRK00222 381666005651 SelR domain; Region: SelR; pfam01641 381666005652 hypothetical protein; Validated; Region: PRK00029 381666005653 Uncharacterized conserved protein [Function unknown]; Region: COG0397 381666005654 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 381666005655 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 381666005656 dimer interface [polypeptide binding]; other site 381666005657 acyl-activating enzyme (AAE) consensus motif; other site 381666005658 putative active site [active] 381666005659 AMP binding site [chemical binding]; other site 381666005660 putative CoA binding site [chemical binding]; other site 381666005661 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666005662 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 381666005663 putative ligand binding site [chemical binding]; other site 381666005664 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 381666005665 TM-ABC transporter signature motif; other site 381666005666 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 381666005667 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 381666005668 TM-ABC transporter signature motif; other site 381666005669 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666005670 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 381666005671 Walker A/P-loop; other site 381666005672 ATP binding site [chemical binding]; other site 381666005673 Q-loop/lid; other site 381666005674 ABC transporter signature motif; other site 381666005675 Walker B; other site 381666005676 D-loop; other site 381666005677 H-loop/switch region; other site 381666005678 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666005679 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 381666005680 Walker A/P-loop; other site 381666005681 ATP binding site [chemical binding]; other site 381666005682 Q-loop/lid; other site 381666005683 ABC transporter signature motif; other site 381666005684 Walker B; other site 381666005685 D-loop; other site 381666005686 H-loop/switch region; other site 381666005687 lysine transporter; Provisional; Region: PRK10836 381666005688 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 381666005689 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 381666005690 substrate binding site [chemical binding]; other site 381666005691 oxyanion hole (OAH) forming residues; other site 381666005692 trimer interface [polypeptide binding]; other site 381666005693 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 381666005694 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666005695 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666005696 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 381666005697 Isochorismatase family; Region: Isochorismatase; pfam00857 381666005698 catalytic triad [active] 381666005699 metal binding site [ion binding]; metal-binding site 381666005700 conserved cis-peptide bond; other site 381666005701 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 381666005702 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 381666005703 dimer interface [polypeptide binding]; other site 381666005704 active site 381666005705 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 381666005706 CoenzymeA binding site [chemical binding]; other site 381666005707 subunit interaction site [polypeptide binding]; other site 381666005708 PHB binding site; other site 381666005709 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 381666005710 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 381666005711 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666005712 active site 381666005713 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 381666005714 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 381666005715 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666005716 NAD(P) binding site [chemical binding]; other site 381666005717 active site 381666005718 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 381666005719 CoenzymeA binding site [chemical binding]; other site 381666005720 subunit interaction site [polypeptide binding]; other site 381666005721 PHB binding site; other site 381666005722 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 381666005723 Prostaglandin dehydrogenases; Region: PGDH; cd05288 381666005724 NAD(P) binding site [chemical binding]; other site 381666005725 substrate binding site [chemical binding]; other site 381666005726 dimer interface [polypeptide binding]; other site 381666005727 hypothetical protein; Provisional; Region: PRK06208 381666005728 intersubunit interface [polypeptide binding]; other site 381666005729 active site 381666005730 Zn2+ binding site [ion binding]; other site 381666005731 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666005732 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 381666005733 C-terminal domain interface [polypeptide binding]; other site 381666005734 GSH binding site (G-site) [chemical binding]; other site 381666005735 dimer interface [polypeptide binding]; other site 381666005736 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 381666005737 substrate binding pocket (H-site) [chemical binding]; other site 381666005738 N-terminal domain interface [polypeptide binding]; other site 381666005739 hypothetical protein; Provisional; Region: PRK06194 381666005740 classical (c) SDRs; Region: SDR_c; cd05233 381666005741 NAD(P) binding site [chemical binding]; other site 381666005742 active site 381666005743 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666005744 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666005745 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666005746 DNA-binding site [nucleotide binding]; DNA binding site 381666005747 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 381666005748 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666005749 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_6; cd06340 381666005750 putative ligand binding site [chemical binding]; other site 381666005751 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666005752 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 381666005753 TM-ABC transporter signature motif; other site 381666005754 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 381666005755 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 381666005756 TM-ABC transporter signature motif; other site 381666005757 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666005758 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 381666005759 Walker A/P-loop; other site 381666005760 ATP binding site [chemical binding]; other site 381666005761 Q-loop/lid; other site 381666005762 ABC transporter signature motif; other site 381666005763 Walker B; other site 381666005764 D-loop; other site 381666005765 H-loop/switch region; other site 381666005766 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666005767 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 381666005768 Walker A/P-loop; other site 381666005769 ATP binding site [chemical binding]; other site 381666005770 Q-loop/lid; other site 381666005771 ABC transporter signature motif; other site 381666005772 Walker B; other site 381666005773 D-loop; other site 381666005774 H-loop/switch region; other site 381666005775 Isochorismatase family; Region: Isochorismatase; pfam00857 381666005776 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 381666005777 catalytic triad [active] 381666005778 conserved cis-peptide bond; other site 381666005779 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 381666005780 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 381666005781 putative active site [active] 381666005782 putative catalytic site [active] 381666005783 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 381666005784 putative active site [active] 381666005785 putative catalytic site [active] 381666005786 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 381666005787 active site 381666005788 catalytic residues [active] 381666005789 metal binding site [ion binding]; metal-binding site 381666005790 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666005791 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666005792 isopropylmalate isomerase large subunit; Provisional; Region: PRK12466 381666005793 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 381666005794 substrate binding site [chemical binding]; other site 381666005795 ligand binding site [chemical binding]; other site 381666005796 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 381666005797 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 381666005798 hypothetical protein; Provisional; Region: PRK14812 381666005799 substrate binding site [chemical binding]; other site 381666005800 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666005801 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666005802 trimer interface [polypeptide binding]; other site 381666005803 eyelet of channel; other site 381666005804 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 381666005805 putative ADP-ribose binding site [chemical binding]; other site 381666005806 putative active site [active] 381666005807 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 381666005808 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 381666005809 putative active site [active] 381666005810 metal binding site [ion binding]; metal-binding site 381666005811 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 381666005812 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 381666005813 substrate binding pocket [chemical binding]; other site 381666005814 Tripartite tricarboxylate transporter family receptor; Region: TctC; pfam03401 381666005815 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 381666005816 active site 381666005817 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 381666005818 putative NAD(P) binding site [chemical binding]; other site 381666005819 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 381666005820 active site 381666005821 putative substrate binding site [chemical binding]; other site 381666005822 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 381666005823 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 381666005824 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 381666005825 putative substrate translocation pore; other site 381666005826 putative aldolase; Validated; Region: PRK08130 381666005827 intersubunit interface [polypeptide binding]; other site 381666005828 active site 381666005829 Zn2+ binding site [ion binding]; other site 381666005830 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 381666005831 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 381666005832 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 381666005833 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666005834 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666005835 DNA-binding site [nucleotide binding]; DNA binding site 381666005836 FCD domain; Region: FCD; pfam07729 381666005837 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 381666005838 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 381666005839 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666005840 Coenzyme A binding pocket [chemical binding]; other site 381666005841 Uncharacterized conserved protein [Function unknown]; Region: COG3332 381666005842 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 381666005843 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 381666005844 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 381666005845 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 381666005846 YceG-like family; Region: YceG; pfam02618 381666005847 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 381666005848 dimerization interface [polypeptide binding]; other site 381666005849 thymidylate kinase; Validated; Region: tmk; PRK00698 381666005850 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 381666005851 TMP-binding site; other site 381666005852 ATP-binding site [chemical binding]; other site 381666005853 DNA polymerase III subunit delta'; Validated; Region: PRK06964 381666005854 DNA polymerase III subunit delta'; Validated; Region: PRK08485 381666005855 PilZ domain; Region: PilZ; cl01260 381666005856 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 381666005857 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666005858 Coenzyme A binding pocket [chemical binding]; other site 381666005859 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 381666005860 active site 381666005861 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 381666005862 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 381666005863 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 381666005864 Uncharacterized conserved protein [Function unknown]; Region: COG3339 381666005865 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 381666005866 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 381666005867 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 381666005868 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 381666005869 LysR family transcriptional regulator; Provisional; Region: PRK14997 381666005870 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666005871 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 381666005872 putative effector binding pocket; other site 381666005873 putative dimerization interface [polypeptide binding]; other site 381666005874 DoxX; Region: DoxX; pfam07681 381666005875 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 381666005876 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 381666005877 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 381666005878 active site 381666005879 phosphorylation site [posttranslational modification] 381666005880 intermolecular recognition site; other site 381666005881 dimerization interface [polypeptide binding]; other site 381666005882 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 381666005883 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 381666005884 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 381666005885 Cupin domain; Region: Cupin_2; cl17218 381666005886 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666005887 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 381666005888 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 381666005889 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 381666005890 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 381666005891 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666005892 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666005893 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 381666005894 dimerization interface [polypeptide binding]; other site 381666005895 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 381666005896 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 381666005897 dimer interface [polypeptide binding]; other site 381666005898 conserved gate region; other site 381666005899 putative PBP binding loops; other site 381666005900 ABC-ATPase subunit interface; other site 381666005901 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 381666005902 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666005903 DNA-binding site [nucleotide binding]; DNA binding site 381666005904 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 381666005905 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666005906 homodimer interface [polypeptide binding]; other site 381666005907 catalytic residue [active] 381666005908 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 381666005909 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 381666005910 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 381666005911 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 381666005912 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 381666005913 putative acyl-acceptor binding pocket; other site 381666005914 Autotransporter beta-domain; Region: Autotransporter; smart00869 381666005915 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 381666005916 Surface antigen; Region: Bac_surface_Ag; pfam01103 381666005917 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 381666005918 Uncharacterized conserved protein [Function unknown]; Region: COG1262 381666005919 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 381666005920 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 381666005921 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 381666005922 motif II; other site 381666005923 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 381666005924 Sulfatase; Region: Sulfatase; pfam00884 381666005925 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 381666005926 MoxR-like ATPases [General function prediction only]; Region: COG0714 381666005927 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 381666005928 Walker A motif; other site 381666005929 ATP binding site [chemical binding]; other site 381666005930 Walker B motif; other site 381666005931 arginine finger; other site 381666005932 Protein of unknown function DUF58; Region: DUF58; pfam01882 381666005933 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 381666005934 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 381666005935 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 381666005936 metal ion-dependent adhesion site (MIDAS); other site 381666005937 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 381666005938 metal ion-dependent adhesion site (MIDAS); other site 381666005939 Oxygen tolerance; Region: BatD; pfam13584 381666005940 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 381666005941 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 381666005942 TrkA-C domain; Region: TrkA_C; pfam02080 381666005943 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 381666005944 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666005945 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 381666005946 putative DNA binding site [nucleotide binding]; other site 381666005947 putative Zn2+ binding site [ion binding]; other site 381666005948 AsnC family; Region: AsnC_trans_reg; pfam01037 381666005949 Cysteine dioxygenase type I; Region: CDO_I; pfam05995 381666005950 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 381666005951 Uncharacterized conserved protein [Function unknown]; Region: COG1615 381666005952 acetyl-CoA synthetase; Provisional; Region: PRK00174 381666005953 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 381666005954 active site 381666005955 CoA binding site [chemical binding]; other site 381666005956 acyl-activating enzyme (AAE) consensus motif; other site 381666005957 AMP binding site [chemical binding]; other site 381666005958 acetate binding site [chemical binding]; other site 381666005959 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 381666005960 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 381666005961 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 381666005962 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 381666005963 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 381666005964 HSP70 interaction site [polypeptide binding]; other site 381666005965 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 381666005966 S-adenosylmethionine binding site [chemical binding]; other site 381666005967 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 381666005968 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 381666005969 S-adenosylmethionine binding site [chemical binding]; other site 381666005970 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 381666005971 nucleotide binding site [chemical binding]; other site 381666005972 putative NEF/HSP70 interaction site [polypeptide binding]; other site 381666005973 SBD interface [polypeptide binding]; other site 381666005974 DNA-K related protein; Region: DUF3731; pfam12531 381666005975 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 381666005976 nucleotide binding site [chemical binding]; other site 381666005977 putative NEF/HSP70 interaction site [polypeptide binding]; other site 381666005978 SBD interface [polypeptide binding]; other site 381666005979 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 381666005980 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 381666005981 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 381666005982 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 381666005983 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 381666005984 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666005985 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 381666005986 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 381666005987 DNA binding residues [nucleotide binding] 381666005988 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 381666005989 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 381666005990 putative active site [active] 381666005991 putative dimer interface [polypeptide binding]; other site 381666005992 benzoate transport; Region: 2A0115; TIGR00895 381666005993 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 381666005994 putative substrate translocation pore; other site 381666005995 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 381666005996 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 381666005997 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666005998 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666005999 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 381666006000 [2Fe-2S] cluster binding site [ion binding]; other site 381666006001 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 381666006002 inter-subunit interface; other site 381666006003 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 381666006004 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 381666006005 iron-sulfur cluster [ion binding]; other site 381666006006 [2Fe-2S] cluster binding site [ion binding]; other site 381666006007 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 381666006008 putative alpha subunit interface [polypeptide binding]; other site 381666006009 putative active site [active] 381666006010 putative substrate binding site [chemical binding]; other site 381666006011 Fe binding site [ion binding]; other site 381666006012 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666006013 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666006014 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 381666006015 substrate binding pocket [chemical binding]; other site 381666006016 dimerization interface [polypeptide binding]; other site 381666006017 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 381666006018 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 381666006019 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 381666006020 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 381666006021 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 381666006022 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 381666006023 Subunit I/III interface [polypeptide binding]; other site 381666006024 Subunit III/IV interface [polypeptide binding]; other site 381666006025 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 381666006026 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 381666006027 D-pathway; other site 381666006028 Putative ubiquinol binding site [chemical binding]; other site 381666006029 Low-spin heme (heme b) binding site [chemical binding]; other site 381666006030 Putative water exit pathway; other site 381666006031 Binuclear center (heme o3/CuB) [ion binding]; other site 381666006032 K-pathway; other site 381666006033 Putative proton exit pathway; other site 381666006034 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 381666006035 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 381666006036 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 381666006037 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 381666006038 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666006039 DNA-binding site [nucleotide binding]; DNA binding site 381666006040 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 381666006041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666006042 homodimer interface [polypeptide binding]; other site 381666006043 catalytic residue [active] 381666006044 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666006045 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666006046 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 381666006047 dimerization interface [polypeptide binding]; other site 381666006048 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666006049 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 381666006050 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 381666006051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666006052 homodimer interface [polypeptide binding]; other site 381666006053 catalytic residue [active] 381666006054 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666006055 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 381666006056 putative C-terminal domain interface [polypeptide binding]; other site 381666006057 putative GSH binding site (G-site) [chemical binding]; other site 381666006058 putative dimer interface [polypeptide binding]; other site 381666006059 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 381666006060 dimer interface [polypeptide binding]; other site 381666006061 N-terminal domain interface [polypeptide binding]; other site 381666006062 putative substrate binding pocket (H-site) [chemical binding]; other site 381666006063 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 381666006064 dimer interface [polypeptide binding]; other site 381666006065 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 381666006066 DNA polymerase II; Reviewed; Region: PRK05762 381666006067 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 381666006068 active site 381666006069 catalytic site [active] 381666006070 substrate binding site [chemical binding]; other site 381666006071 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 381666006072 active site 381666006073 metal-binding site 381666006074 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666006075 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 381666006076 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666006077 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666006078 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 381666006079 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666006080 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 381666006081 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 381666006082 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 381666006083 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 381666006084 ATP adenylyltransferase; Region: ATP_transf; pfam09830 381666006085 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 381666006086 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666006087 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 381666006088 dimerization interface [polypeptide binding]; other site 381666006089 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666006090 MarR family; Region: MarR; pfam01047 381666006091 OsmC-like protein; Region: OsmC; cl00767 381666006092 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666006093 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666006094 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 381666006095 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 381666006096 FMN binding site [chemical binding]; other site 381666006097 active site 381666006098 substrate binding site [chemical binding]; other site 381666006099 catalytic residue [active] 381666006100 Peptidase family M48; Region: Peptidase_M48; cl12018 381666006101 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 381666006102 Part of AAA domain; Region: AAA_19; pfam13245 381666006103 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 381666006104 AAA domain; Region: AAA_12; pfam13087 381666006105 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 381666006106 TolA protein; Region: tolA_full; TIGR02794 381666006107 TonB C terminal; Region: TonB_2; pfam13103 381666006108 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 381666006109 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666006110 active site 381666006111 metal binding site [ion binding]; metal-binding site 381666006112 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666006113 Predicted flavoprotein [General function prediction only]; Region: COG0431 381666006114 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 381666006115 Helix-turn-helix domain; Region: HTH_18; pfam12833 381666006116 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666006117 Phage integrase protein; Region: DUF3701; pfam12482 381666006118 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666006119 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 381666006120 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 381666006121 Int/Topo IB signature motif; other site 381666006122 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 381666006123 DNA photolyase; Region: DNA_photolyase; pfam00875 381666006124 Predicted permease [General function prediction only]; Region: COG2985 381666006125 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 381666006126 TrkA-C domain; Region: TrkA_C; pfam02080 381666006127 TrkA-C domain; Region: TrkA_C; pfam02080 381666006128 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 381666006129 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 381666006130 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 381666006131 putative ligand binding site [chemical binding]; other site 381666006132 putative NAD binding site [chemical binding]; other site 381666006133 catalytic site [active] 381666006134 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 381666006135 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 381666006136 putative ligand binding site [chemical binding]; other site 381666006137 putative NAD binding site [chemical binding]; other site 381666006138 catalytic site [active] 381666006139 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666006140 Coenzyme A binding pocket [chemical binding]; other site 381666006141 Isochorismatase family; Region: Isochorismatase; pfam00857 381666006142 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 381666006143 catalytic triad [active] 381666006144 dimer interface [polypeptide binding]; other site 381666006145 conserved cis-peptide bond; other site 381666006146 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 381666006147 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666006148 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 381666006149 dimerization interface [polypeptide binding]; other site 381666006150 substrate binding pocket [chemical binding]; other site 381666006151 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 381666006152 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 381666006153 active site 381666006154 catalytic tetrad [active] 381666006155 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 381666006156 putative hydrophobic ligand binding site [chemical binding]; other site 381666006157 protein interface [polypeptide binding]; other site 381666006158 gate; other site 381666006159 Transcriptional regulators [Transcription]; Region: PurR; COG1609 381666006160 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 381666006161 DNA binding site [nucleotide binding] 381666006162 domain linker motif; other site 381666006163 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 381666006164 dimerization interface [polypeptide binding]; other site 381666006165 ligand binding site [chemical binding]; other site 381666006166 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 381666006167 histidinol dehydrogenase; Region: hisD; TIGR00069 381666006168 NAD binding site [chemical binding]; other site 381666006169 dimerization interface [polypeptide binding]; other site 381666006170 product binding site; other site 381666006171 substrate binding site [chemical binding]; other site 381666006172 zinc binding site [ion binding]; other site 381666006173 catalytic residues [active] 381666006174 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 381666006175 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 381666006176 putative substrate translocation pore; other site 381666006177 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 381666006178 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 381666006179 FMN binding site [chemical binding]; other site 381666006180 active site 381666006181 substrate binding site [chemical binding]; other site 381666006182 catalytic residue [active] 381666006183 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666006184 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 381666006185 putative substrate translocation pore; other site 381666006186 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666006187 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 381666006188 substrate binding site [chemical binding]; other site 381666006189 oxyanion hole (OAH) forming residues; other site 381666006190 trimer interface [polypeptide binding]; other site 381666006191 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 381666006192 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666006193 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 381666006194 acyl-activating enzyme (AAE) consensus motif; other site 381666006195 acyl-activating enzyme (AAE) consensus motif; other site 381666006196 putative AMP binding site [chemical binding]; other site 381666006197 putative active site [active] 381666006198 putative CoA binding site [chemical binding]; other site 381666006199 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666006200 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 381666006201 catalytic loop [active] 381666006202 iron binding site [ion binding]; other site 381666006203 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666006204 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 381666006205 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 381666006206 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666006207 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 381666006208 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666006209 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 381666006210 putative hydrophobic ligand binding site [chemical binding]; other site 381666006211 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666006212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666006213 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 381666006214 dimerization interface [polypeptide binding]; other site 381666006215 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 381666006216 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 381666006217 active site 381666006218 catalytic triad [active] 381666006219 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 381666006220 oligomeric interface; other site 381666006221 homodimer interface [polypeptide binding]; other site 381666006222 putative active site [active] 381666006223 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 381666006224 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666006225 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 381666006226 Walker A/P-loop; other site 381666006227 ATP binding site [chemical binding]; other site 381666006228 Q-loop/lid; other site 381666006229 ABC transporter signature motif; other site 381666006230 Walker B; other site 381666006231 D-loop; other site 381666006232 H-loop/switch region; other site 381666006233 Putative cyclase; Region: Cyclase; cl00814 381666006234 Predicted transcriptional regulators [Transcription]; Region: COG1733 381666006235 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 381666006236 putative acyltransferase; Provisional; Region: PRK05790 381666006237 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 381666006238 dimer interface [polypeptide binding]; other site 381666006239 active site 381666006240 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 381666006241 putative active site [active] 381666006242 putative catalytic site [active] 381666006243 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 381666006244 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 381666006245 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 381666006246 enoyl-CoA hydratase; Provisional; Region: PRK07511 381666006247 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 381666006248 substrate binding site [chemical binding]; other site 381666006249 oxyanion hole (OAH) forming residues; other site 381666006250 trimer interface [polypeptide binding]; other site 381666006251 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666006252 AMP-binding domain protein; Validated; Region: PRK07529 381666006253 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666006254 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 381666006255 acyl-activating enzyme (AAE) consensus motif; other site 381666006256 putative AMP binding site [chemical binding]; other site 381666006257 putative active site [active] 381666006258 putative CoA binding site [chemical binding]; other site 381666006259 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 381666006260 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 381666006261 substrate binding site [chemical binding]; other site 381666006262 oxyanion hole (OAH) forming residues; other site 381666006263 trimer interface [polypeptide binding]; other site 381666006264 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 381666006265 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 381666006266 dimer interface [polypeptide binding]; other site 381666006267 active site 381666006268 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 381666006269 putative hydrophobic ligand binding site [chemical binding]; other site 381666006270 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666006271 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666006272 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666006273 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 381666006274 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666006275 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 381666006276 FAD binding domain; Region: FAD_binding_4; pfam01565 381666006277 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 381666006278 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666006279 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666006280 WHG domain; Region: WHG; pfam13305 381666006281 Predicted transcriptional regulators [Transcription]; Region: COG1733 381666006282 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 381666006283 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666006284 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666006285 benzoate transport; Region: 2A0115; TIGR00895 381666006286 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 381666006287 putative substrate translocation pore; other site 381666006288 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 381666006289 putative substrate translocation pore; other site 381666006290 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 381666006291 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 381666006292 XdhC Rossmann domain; Region: XdhC_C; pfam13478 381666006293 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 381666006294 N-terminal domain interface [polypeptide binding]; other site 381666006295 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 381666006296 Amidase; Region: Amidase; cl11426 381666006297 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 381666006298 D-galactonate transporter; Region: 2A0114; TIGR00893 381666006299 putative substrate translocation pore; other site 381666006300 allantoate amidohydrolase; Reviewed; Region: PRK12893 381666006301 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 381666006302 active site 381666006303 metal binding site [ion binding]; metal-binding site 381666006304 dimer interface [polypeptide binding]; other site 381666006305 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 381666006306 homotrimer interaction site [polypeptide binding]; other site 381666006307 putative active site [active] 381666006308 Creatinine amidohydrolase; Region: Creatininase; pfam02633 381666006309 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 381666006310 D-galactonate transporter; Region: 2A0114; TIGR00893 381666006311 putative substrate translocation pore; other site 381666006312 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666006313 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666006314 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 381666006315 dimerization interface [polypeptide binding]; other site 381666006316 Predicted transcriptional regulators [Transcription]; Region: COG1733 381666006317 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 381666006318 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 381666006319 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666006320 putative substrate translocation pore; other site 381666006321 Integrase core domain; Region: rve; pfam00665 381666006322 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 381666006323 dinuclear metal binding motif [ion binding]; other site 381666006324 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 381666006325 Uncharacterized conserved protein [Function unknown]; Region: COG2128 381666006326 Cupin domain; Region: Cupin_2; pfam07883 381666006327 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 381666006328 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 381666006329 dimer interface [polypeptide binding]; other site 381666006330 TPP-binding site [chemical binding]; other site 381666006331 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 381666006332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666006333 NAD(P) binding site [chemical binding]; other site 381666006334 active site 381666006335 osmolarity response regulator; Provisional; Region: ompR; PRK09468 381666006336 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 381666006337 active site 381666006338 phosphorylation site [posttranslational modification] 381666006339 intermolecular recognition site; other site 381666006340 dimerization interface [polypeptide binding]; other site 381666006341 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 381666006342 DNA binding site [nucleotide binding] 381666006343 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 381666006344 dimer interface [polypeptide binding]; other site 381666006345 phosphorylation site [posttranslational modification] 381666006346 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 381666006347 ATP binding site [chemical binding]; other site 381666006348 Mg2+ binding site [ion binding]; other site 381666006349 G-X-G motif; other site 381666006350 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 381666006351 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 381666006352 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 381666006353 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 381666006354 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 381666006355 catalytic residues [active] 381666006356 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 381666006357 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 381666006358 catalytic residues [active] 381666006359 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 381666006360 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666006361 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 381666006362 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666006363 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666006364 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 381666006365 substrate binding pocket [chemical binding]; other site 381666006366 dimerization interface [polypeptide binding]; other site 381666006367 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 381666006368 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666006369 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666006370 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666006371 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 381666006372 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666006373 Predicted transcriptional regulator [Transcription]; Region: COG1959 381666006374 Transcriptional regulator; Region: Rrf2; pfam02082 381666006375 Transcriptional regulator; Region: Rrf2; cl17282 381666006376 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 381666006377 NAD(P) binding site [chemical binding]; other site 381666006378 catalytic residues [active] 381666006379 Cupin; Region: Cupin_6; pfam12852 381666006380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666006381 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666006382 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666006383 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666006384 Protein of unknown function, DUF417; Region: DUF417; cl01162 381666006385 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666006386 Pleckstrin homology-like domain; Region: PH-like; cl17171 381666006387 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 381666006388 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666006389 ligand binding site [chemical binding]; other site 381666006390 flexible hinge region; other site 381666006391 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 381666006392 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666006393 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666006394 Uncharacterized conserved protein [Function unknown]; Region: COG5476 381666006395 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 381666006396 MlrC C-terminus; Region: MlrC_C; pfam07171 381666006397 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 381666006398 homotrimer interaction site [polypeptide binding]; other site 381666006399 putative active site [active] 381666006400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666006401 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 381666006402 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 381666006403 catalytic residues [active] 381666006404 hypothetical protein; Provisional; Region: PRK07236 381666006405 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 381666006406 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 381666006407 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 381666006408 active site 381666006409 dimer interface [polypeptide binding]; other site 381666006410 metal binding site [ion binding]; metal-binding site 381666006411 Tripartite tricarboxylate transporter family receptor; Region: TctC; pfam03401 381666006412 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666006413 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666006414 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666006415 putative effector binding pocket; other site 381666006416 dimerization interface [polypeptide binding]; other site 381666006417 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 381666006418 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 381666006419 FMN binding site [chemical binding]; other site 381666006420 active site 381666006421 substrate binding site [chemical binding]; other site 381666006422 catalytic residue [active] 381666006423 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 381666006424 Epoxide hydrolase N terminus; Region: EHN; pfam06441 381666006425 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666006426 Cupin domain; Region: Cupin_2; pfam07883 381666006427 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 381666006428 dimer interface [polypeptide binding]; other site 381666006429 FMN binding site [chemical binding]; other site 381666006430 Uncharacterized conserved protein [Function unknown]; Region: COG2128 381666006431 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 381666006432 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 381666006433 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 381666006434 C-terminal domain interface [polypeptide binding]; other site 381666006435 GSH binding site (G-site) [chemical binding]; other site 381666006436 dimer interface [polypeptide binding]; other site 381666006437 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 381666006438 dimer interface [polypeptide binding]; other site 381666006439 N-terminal domain interface [polypeptide binding]; other site 381666006440 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666006441 Coenzyme A binding pocket [chemical binding]; other site 381666006442 Cupin; Region: Cupin_6; pfam12852 381666006443 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666006444 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666006445 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666006446 Protein of unknown function, DUF417; Region: DUF417; cl01162 381666006447 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; cl10015 381666006448 homotrimer interaction site [polypeptide binding]; other site 381666006449 putative active site [active] 381666006450 acetaldehyde dehydrogenase; Validated; Region: PRK08300 381666006451 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 381666006452 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 381666006453 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 381666006454 active site 381666006455 catalytic residues [active] 381666006456 metal binding site [ion binding]; metal-binding site 381666006457 DmpG-like communication domain; Region: DmpG_comm; pfam07836 381666006458 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 381666006459 cyclase homology domain; Region: CHD; cd07302 381666006460 nucleotidyl binding site; other site 381666006461 metal binding site [ion binding]; metal-binding site 381666006462 dimer interface [polypeptide binding]; other site 381666006463 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 381666006464 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 381666006465 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 381666006466 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 381666006467 active site 381666006468 nucleophile elbow; other site 381666006469 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 381666006470 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666006471 NAD(P) binding site [chemical binding]; other site 381666006472 active site 381666006473 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 381666006474 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666006475 DoxX; Region: DoxX; cl17842 381666006476 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 381666006477 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666006478 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 381666006479 active site 381666006480 phosphorylation site [posttranslational modification] 381666006481 intermolecular recognition site; other site 381666006482 dimerization interface [polypeptide binding]; other site 381666006483 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 381666006484 DNA binding site [nucleotide binding] 381666006485 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 381666006486 dimer interface [polypeptide binding]; other site 381666006487 phosphorylation site [posttranslational modification] 381666006488 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 381666006489 ATP binding site [chemical binding]; other site 381666006490 Mg2+ binding site [ion binding]; other site 381666006491 G-X-G motif; other site 381666006492 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 381666006493 hypothetical protein; Provisional; Region: PRK05409 381666006494 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 381666006495 PAS fold; Region: PAS_3; pfam08447 381666006496 putative active site [active] 381666006497 heme pocket [chemical binding]; other site 381666006498 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 381666006499 Transposase; Region: DEDD_Tnp_IS110; pfam01548 381666006500 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 381666006501 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 381666006502 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 381666006503 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 381666006504 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666006505 substrate binding site [chemical binding]; other site 381666006506 oxyanion hole (OAH) forming residues; other site 381666006507 trimer interface [polypeptide binding]; other site 381666006508 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 381666006509 active site 1 [active] 381666006510 DoxX; Region: DoxX; cl17842 381666006511 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666006512 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 381666006513 ligand binding site [chemical binding]; other site 381666006514 flexible hinge region; other site 381666006515 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 381666006516 heme-binding site [chemical binding]; other site 381666006517 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 381666006518 RibD C-terminal domain; Region: RibD_C; cl17279 381666006519 AAA domain; Region: AAA_17; cl17253 381666006520 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 381666006521 Transposase; Region: DDE_Tnp_ISL3; pfam01610 381666006522 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 381666006523 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 381666006524 active site 381666006525 substrate binding site [chemical binding]; other site 381666006526 metal binding site [ion binding]; metal-binding site 381666006527 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 381666006528 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 381666006529 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 381666006530 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 381666006531 NADP binding site [chemical binding]; other site 381666006532 active site 381666006533 putative substrate binding site [chemical binding]; other site 381666006534 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 381666006535 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 381666006536 NAD binding site [chemical binding]; other site 381666006537 substrate binding site [chemical binding]; other site 381666006538 homodimer interface [polypeptide binding]; other site 381666006539 active site 381666006540 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 381666006541 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 381666006542 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 381666006543 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666006544 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 381666006545 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 381666006546 Substrate binding site; other site 381666006547 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 381666006548 Bacterial sugar transferase; Region: Bac_transf; pfam02397 381666006549 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 381666006550 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 381666006551 tyrosine kinase; Provisional; Region: PRK11519 381666006552 Chain length determinant protein; Region: Wzz; pfam02706 381666006553 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 381666006554 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 381666006555 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 381666006556 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 381666006557 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 381666006558 active site 381666006559 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 381666006560 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 381666006561 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666006562 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 381666006563 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 381666006564 putative ADP-binding pocket [chemical binding]; other site 381666006565 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 381666006566 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 381666006567 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 381666006568 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 381666006569 substrate binding site; other site 381666006570 tetramer interface; other site 381666006571 Right handed beta helix region; Region: Beta_helix; pfam13229 381666006572 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 381666006573 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 381666006574 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 381666006575 ATP binding site [chemical binding]; other site 381666006576 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 381666006577 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 381666006578 dimer interface [polypeptide binding]; other site 381666006579 Cytochrome c; Region: Cytochrom_C; pfam00034 381666006580 Methyltransferase domain; Region: Methyltransf_23; pfam13489 381666006581 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 381666006582 S-adenosylmethionine binding site [chemical binding]; other site 381666006583 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 381666006584 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 381666006585 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 381666006586 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 381666006587 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 381666006588 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 381666006589 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 381666006590 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 381666006591 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 381666006592 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 381666006593 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 381666006594 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 381666006595 Amidase; Region: Amidase; pfam01425 381666006596 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666006597 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 381666006598 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 381666006599 Trp docking motif [polypeptide binding]; other site 381666006600 cytochrome domain interface [polypeptide binding]; other site 381666006601 active site 381666006602 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 381666006603 enoyl-CoA hydratase; Provisional; Region: PRK09245 381666006604 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 381666006605 substrate binding site [chemical binding]; other site 381666006606 oxyanion hole (OAH) forming residues; other site 381666006607 trimer interface [polypeptide binding]; other site 381666006608 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666006609 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666006610 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 381666006611 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 381666006612 dimer interface [polypeptide binding]; other site 381666006613 active site 381666006614 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666006615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666006616 NAD(P) binding site [chemical binding]; other site 381666006617 active site 381666006618 enoyl-CoA hydratase; Provisional; Region: PRK08252 381666006619 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 381666006620 substrate binding site [chemical binding]; other site 381666006621 oxyanion hole (OAH) forming residues; other site 381666006622 trimer interface [polypeptide binding]; other site 381666006623 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666006624 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 381666006625 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 381666006626 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 381666006627 ATP-grasp domain; Region: ATP-grasp; pfam02222 381666006628 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 381666006629 Mechanosensitive ion channel; Region: MS_channel; pfam00924 381666006630 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666006631 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666006632 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 381666006633 dimerization interface [polypeptide binding]; other site 381666006634 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 381666006635 intersubunit interface [polypeptide binding]; other site 381666006636 active site 381666006637 Zn2+ binding site [ion binding]; other site 381666006638 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 381666006639 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666006640 putative substrate translocation pore; other site 381666006641 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 381666006642 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 381666006643 putative catalytic residue [active] 381666006644 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 381666006645 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666006646 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666006647 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 381666006648 dimerization interface [polypeptide binding]; other site 381666006649 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 381666006650 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 381666006651 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 381666006652 Zn2+ binding site [ion binding]; other site 381666006653 Mg2+ binding site [ion binding]; other site 381666006654 Uncharacterized conserved protein [Function unknown]; Region: COG1359 381666006655 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 381666006656 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 381666006657 dimer interface [polypeptide binding]; other site 381666006658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666006659 catalytic residue [active] 381666006660 Propionate catabolism activator; Region: PrpR_N; pfam06506 381666006661 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 381666006662 PAS domain; Region: PAS; smart00091 381666006663 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 381666006664 Walker A motif; other site 381666006665 ATP binding site [chemical binding]; other site 381666006666 Walker B motif; other site 381666006667 arginine finger; other site 381666006668 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 381666006669 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 381666006670 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 381666006671 tetramer interface [polypeptide binding]; other site 381666006672 active site 381666006673 Mg2+/Mn2+ binding site [ion binding]; other site 381666006674 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 381666006675 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 381666006676 dimer interface [polypeptide binding]; other site 381666006677 active site 381666006678 citrylCoA binding site [chemical binding]; other site 381666006679 oxalacetate/citrate binding site [chemical binding]; other site 381666006680 coenzyme A binding site [chemical binding]; other site 381666006681 catalytic triad [active] 381666006682 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 381666006683 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 381666006684 substrate binding site [chemical binding]; other site 381666006685 ligand binding site [chemical binding]; other site 381666006686 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 381666006687 substrate binding site [chemical binding]; other site 381666006688 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 381666006689 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 381666006690 2-methylcitrate dehydratase; Region: prpD; TIGR02330 381666006691 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 381666006692 active site 381666006693 homodimer interface [polypeptide binding]; other site 381666006694 homotetramer interface [polypeptide binding]; other site 381666006695 Cupin; Region: Cupin_6; pfam12852 381666006696 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 381666006697 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666006698 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 381666006699 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 381666006700 Cation efflux family; Region: Cation_efflux; pfam01545 381666006701 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 381666006702 CoenzymeA binding site [chemical binding]; other site 381666006703 subunit interaction site [polypeptide binding]; other site 381666006704 PHB binding site; other site 381666006705 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 381666006706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 381666006707 MOSC domain; Region: MOSC; pfam03473 381666006708 3-alpha domain; Region: 3-alpha; pfam03475 381666006709 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 381666006710 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 381666006711 catalytic triad [active] 381666006712 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 381666006713 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 381666006714 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 381666006715 active site 381666006716 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 381666006717 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666006718 NAD binding site [chemical binding]; other site 381666006719 catalytic residues [active] 381666006720 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 381666006721 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 381666006722 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 381666006723 ABC transporter; Region: ABC_tran_2; pfam12848 381666006724 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 381666006725 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 381666006726 dimer interface [polypeptide binding]; other site 381666006727 catalytic triad [active] 381666006728 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 381666006729 nucleoside/Zn binding site; other site 381666006730 dimer interface [polypeptide binding]; other site 381666006731 catalytic motif [active] 381666006732 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 381666006733 active site 381666006734 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 381666006735 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 381666006736 FeS/SAM binding site; other site 381666006737 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 381666006738 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 381666006739 dimerization interface [polypeptide binding]; other site 381666006740 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666006741 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 381666006742 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 381666006743 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666006744 Walker A/P-loop; other site 381666006745 ATP binding site [chemical binding]; other site 381666006746 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 381666006747 ABC transporter signature motif; other site 381666006748 Walker B; other site 381666006749 D-loop; other site 381666006750 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 381666006751 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 381666006752 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 381666006753 putative active site [active] 381666006754 putative metal binding site [ion binding]; other site 381666006755 putative oxidoreductase; Provisional; Region: PRK10083 381666006756 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 381666006757 putative NAD(P) binding site [chemical binding]; other site 381666006758 catalytic Zn binding site [ion binding]; other site 381666006759 structural Zn binding site [ion binding]; other site 381666006760 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 381666006761 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 381666006762 putative active site pocket [active] 381666006763 putative metal binding site [ion binding]; other site 381666006764 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666006765 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666006766 DNA-binding site [nucleotide binding]; DNA binding site 381666006767 FCD domain; Region: FCD; pfam07729 381666006768 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 381666006769 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 381666006770 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 381666006771 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 381666006772 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 381666006773 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 381666006774 DctM-like transporters; Region: DctM; pfam06808 381666006775 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 381666006776 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666006777 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 381666006778 DNA binding residues [nucleotide binding] 381666006779 dimerization interface [polypeptide binding]; other site 381666006780 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 381666006781 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 381666006782 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 381666006783 B12 binding site [chemical binding]; other site 381666006784 probable biosynthetic protein, Pnap_2097 family; Region: biosn_Pnap_2097; TIGR04099 381666006785 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 381666006786 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 381666006787 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 381666006788 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 381666006789 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 381666006790 dimerization interface [polypeptide binding]; other site 381666006791 putative ATP binding site [chemical binding]; other site 381666006792 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666006793 Coenzyme A binding pocket [chemical binding]; other site 381666006794 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 381666006795 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 381666006796 FeS/SAM binding site; other site 381666006797 Predicted amidohydrolase [General function prediction only]; Region: COG0388 381666006798 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 381666006799 putative active site [active] 381666006800 catalytic triad [active] 381666006801 putative dimer interface [polypeptide binding]; other site 381666006802 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 381666006803 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 381666006804 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666006805 DNA-binding site [nucleotide binding]; DNA binding site 381666006806 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 381666006807 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666006808 homodimer interface [polypeptide binding]; other site 381666006809 catalytic residue [active] 381666006810 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666006811 Serine hydrolase; Region: Ser_hydrolase; cl17834 381666006812 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 381666006813 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 381666006814 putative NAD(P) binding site [chemical binding]; other site 381666006815 active site 381666006816 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 381666006817 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 381666006818 catalytic loop [active] 381666006819 iron binding site [ion binding]; other site 381666006820 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 381666006821 FAD binding pocket [chemical binding]; other site 381666006822 FAD binding motif [chemical binding]; other site 381666006823 phosphate binding motif [ion binding]; other site 381666006824 beta-alpha-beta structure motif; other site 381666006825 NAD binding pocket [chemical binding]; other site 381666006826 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 381666006827 inter-subunit interface; other site 381666006828 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 381666006829 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 381666006830 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 381666006831 putative alpha subunit interface [polypeptide binding]; other site 381666006832 putative active site [active] 381666006833 putative substrate binding site [chemical binding]; other site 381666006834 Fe binding site [ion binding]; other site 381666006835 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 381666006836 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 381666006837 dimer interface [polypeptide binding]; other site 381666006838 active site 381666006839 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 381666006840 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666006841 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 381666006842 dimerizarion interface [polypeptide binding]; other site 381666006843 CrgA pocket; other site 381666006844 substrate binding pocket [chemical binding]; other site 381666006845 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 381666006846 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 381666006847 octamer interface [polypeptide binding]; other site 381666006848 active site 381666006849 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 381666006850 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 381666006851 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 381666006852 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666006853 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666006854 AMP-binding domain protein; Validated; Region: PRK08315 381666006855 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666006856 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 381666006857 acyl-activating enzyme (AAE) consensus motif; other site 381666006858 acyl-activating enzyme (AAE) consensus motif; other site 381666006859 putative AMP binding site [chemical binding]; other site 381666006860 putative active site [active] 381666006861 putative CoA binding site [chemical binding]; other site 381666006862 isovaleryl-CoA dehydrogenase; Region: PLN02519 381666006863 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 381666006864 substrate binding site [chemical binding]; other site 381666006865 FAD binding site [chemical binding]; other site 381666006866 catalytic base [active] 381666006867 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 381666006868 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 381666006869 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 381666006870 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666006871 ATP-grasp domain; Region: ATP-grasp_4; cl17255 381666006872 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 381666006873 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 381666006874 carboxyltransferase (CT) interaction site; other site 381666006875 biotinylation site [posttranslational modification]; other site 381666006876 S-adenosylmethionine synthetase (AdoMet synthetase); Region: AdoMet_Synthase; pfam01941 381666006877 metallochaperone-like domain; Region: TRASH; smart00746 381666006878 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 381666006879 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 381666006880 Soluble P-type ATPase [General function prediction only]; Region: COG4087 381666006881 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 381666006882 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 381666006883 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 381666006884 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 381666006885 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 381666006886 dimerization interface [polypeptide binding]; other site 381666006887 putative DNA binding site [nucleotide binding]; other site 381666006888 putative Zn2+ binding site [ion binding]; other site 381666006889 Predicted transporter component [General function prediction only]; Region: COG2391 381666006890 Predicted transporter component [General function prediction only]; Region: COG2391 381666006891 Sulphur transport; Region: Sulf_transp; pfam04143 381666006892 PAS domain S-box; Region: sensory_box; TIGR00229 381666006893 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 381666006894 putative active site [active] 381666006895 heme pocket [chemical binding]; other site 381666006896 PAS domain S-box; Region: sensory_box; TIGR00229 381666006897 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 381666006898 putative active site [active] 381666006899 heme pocket [chemical binding]; other site 381666006900 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 381666006901 Histidine kinase; Region: HisKA_3; pfam07730 381666006902 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 381666006903 ATP binding site [chemical binding]; other site 381666006904 Mg2+ binding site [ion binding]; other site 381666006905 G-X-G motif; other site 381666006906 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 381666006907 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 381666006908 Hemerythrin-like domain; Region: Hr-like; cd12108 381666006909 Fe binding site [ion binding]; other site 381666006910 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 381666006911 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 381666006912 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 381666006913 AAA domain; Region: AAA_33; pfam13671 381666006914 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 381666006915 active site 381666006916 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 381666006917 putative FMN binding site [chemical binding]; other site 381666006918 NADPH bind site [chemical binding]; other site 381666006919 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 381666006920 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 381666006921 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 381666006922 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 381666006923 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 381666006924 ring oligomerisation interface [polypeptide binding]; other site 381666006925 ATP/Mg binding site [chemical binding]; other site 381666006926 stacking interactions; other site 381666006927 hinge regions; other site 381666006928 BON domain; Region: BON; pfam04972 381666006929 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 381666006930 BON domain; Region: BON; pfam04972 381666006931 BON domain; Region: BON; pfam04972 381666006932 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666006933 active site 381666006934 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 381666006935 putative FMN binding site [chemical binding]; other site 381666006936 NADPH bind site [chemical binding]; other site 381666006937 UV-endonuclease UvdE; Region: UvdE; cl10036 381666006938 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 381666006939 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 381666006940 NAD(P) binding site [chemical binding]; other site 381666006941 homotetramer interface [polypeptide binding]; other site 381666006942 homodimer interface [polypeptide binding]; other site 381666006943 active site 381666006944 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 381666006945 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 381666006946 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 381666006947 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 381666006948 Ligand Binding Site [chemical binding]; other site 381666006949 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 381666006950 Ligand Binding Site [chemical binding]; other site 381666006951 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 381666006952 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 381666006953 Ligand Binding Site [chemical binding]; other site 381666006954 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 381666006955 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 381666006956 Ligand Binding Site [chemical binding]; other site 381666006957 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 381666006958 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 381666006959 hexamer interface [polypeptide binding]; other site 381666006960 ligand binding site [chemical binding]; other site 381666006961 putative active site [active] 381666006962 NAD(P) binding site [chemical binding]; other site 381666006963 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 381666006964 Repair protein; Region: Repair_PSII; pfam04536 381666006965 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 381666006966 thymidine phosphorylase; Provisional; Region: PRK04350 381666006967 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 381666006968 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 381666006969 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 381666006970 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 381666006971 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 381666006972 ligand binding site [chemical binding]; other site 381666006973 flexible hinge region; other site 381666006974 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 381666006975 putative switch regulator; other site 381666006976 non-specific DNA interactions [nucleotide binding]; other site 381666006977 DNA binding site [nucleotide binding] 381666006978 sequence specific DNA binding site [nucleotide binding]; other site 381666006979 putative cAMP binding site [chemical binding]; other site 381666006980 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 381666006981 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 381666006982 putative dimer interface [polypeptide binding]; other site 381666006983 FOG: CBS domain [General function prediction only]; Region: COG0517 381666006984 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_9; cd04622 381666006985 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 381666006986 BON domain; Region: BON; pfam04972 381666006987 BON domain; Region: BON; pfam04972 381666006988 BON domain; Region: BON; pfam04972 381666006989 BON domain; Region: BON; pfam04972 381666006990 BON domain; Region: BON; pfam04972 381666006991 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 381666006992 CoA binding domain; Region: CoA_binding_2; pfam13380 381666006993 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 381666006994 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 381666006995 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 381666006996 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666006997 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 381666006998 active site 381666006999 phosphorylation site [posttranslational modification] 381666007000 intermolecular recognition site; other site 381666007001 dimerization interface [polypeptide binding]; other site 381666007002 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666007003 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 381666007004 active site 381666007005 phosphorylation site [posttranslational modification] 381666007006 intermolecular recognition site; other site 381666007007 dimerization interface [polypeptide binding]; other site 381666007008 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 381666007009 DNA binding residues [nucleotide binding] 381666007010 dimerization interface [polypeptide binding]; other site 381666007011 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 381666007012 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 381666007013 Ligand Binding Site [chemical binding]; other site 381666007014 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 381666007015 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 381666007016 Beta-Casp domain; Region: Beta-Casp; smart01027 381666007017 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 381666007018 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 381666007019 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 381666007020 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 381666007021 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 381666007022 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 381666007023 motif II; other site 381666007024 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 381666007025 Predicted membrane protein [Function unknown]; Region: COG2259 381666007026 high affinity sulphate transporter 1; Region: sulP; TIGR00815 381666007027 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 381666007028 Sulfate transporter family; Region: Sulfate_transp; pfam00916 381666007029 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 381666007030 GMP synthase; Reviewed; Region: guaA; PRK00074 381666007031 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 381666007032 AMP/PPi binding site [chemical binding]; other site 381666007033 candidate oxyanion hole; other site 381666007034 catalytic triad [active] 381666007035 potential glutamine specificity residues [chemical binding]; other site 381666007036 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 381666007037 ATP Binding subdomain [chemical binding]; other site 381666007038 Ligand Binding sites [chemical binding]; other site 381666007039 Dimerization subdomain; other site 381666007040 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 381666007041 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 381666007042 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 381666007043 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 381666007044 active site 381666007045 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 381666007046 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 381666007047 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 381666007048 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 381666007049 putative coenzyme Q binding site [chemical binding]; other site 381666007050 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 381666007051 SmpB-tmRNA interface; other site 381666007052 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 381666007053 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 381666007054 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 381666007055 phosphoenolpyruvate synthase; Validated; Region: PRK06464 381666007056 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 381666007057 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 381666007058 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 381666007059 PEP synthetase regulatory protein; Provisional; Region: PRK05339 381666007060 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 381666007061 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 381666007062 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 381666007063 RNA/DNA hybrid binding site [nucleotide binding]; other site 381666007064 active site 381666007065 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 381666007066 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 381666007067 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 381666007068 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 381666007069 active site 381666007070 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 381666007071 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 381666007072 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 381666007073 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 381666007074 trimer interface [polypeptide binding]; other site 381666007075 active site 381666007076 UDP-GlcNAc binding site [chemical binding]; other site 381666007077 lipid binding site [chemical binding]; lipid-binding site 381666007078 periplasmic chaperone; Provisional; Region: PRK10780 381666007079 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 381666007080 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 381666007081 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 381666007082 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 381666007083 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 381666007084 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 381666007085 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 381666007086 Surface antigen; Region: Bac_surface_Ag; pfam01103 381666007087 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 381666007088 zinc metallopeptidase RseP; Provisional; Region: PRK10779 381666007089 active site 381666007090 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 381666007091 protein binding site [polypeptide binding]; other site 381666007092 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 381666007093 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 381666007094 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 381666007095 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 381666007096 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 381666007097 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 381666007098 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 381666007099 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 381666007100 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 381666007101 catalytic residue [active] 381666007102 putative FPP diphosphate binding site; other site 381666007103 putative FPP binding hydrophobic cleft; other site 381666007104 dimer interface [polypeptide binding]; other site 381666007105 putative IPP diphosphate binding site; other site 381666007106 ribosome recycling factor; Reviewed; Region: frr; PRK00083 381666007107 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 381666007108 hinge region; other site 381666007109 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 381666007110 putative nucleotide binding site [chemical binding]; other site 381666007111 uridine monophosphate binding site [chemical binding]; other site 381666007112 homohexameric interface [polypeptide binding]; other site 381666007113 elongation factor Ts; Provisional; Region: tsf; PRK09377 381666007114 UBA/TS-N domain; Region: UBA; pfam00627 381666007115 Elongation factor TS; Region: EF_TS; pfam00889 381666007116 Elongation factor TS; Region: EF_TS; pfam00889 381666007117 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 381666007118 rRNA interaction site [nucleotide binding]; other site 381666007119 S8 interaction site; other site 381666007120 putative laminin-1 binding site; other site 381666007121 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 381666007122 active site 381666007123 PII uridylyl-transferase; Provisional; Region: PRK03059 381666007124 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 381666007125 metal binding triad; other site 381666007126 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 381666007127 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 381666007128 Zn2+ binding site [ion binding]; other site 381666007129 Mg2+ binding site [ion binding]; other site 381666007130 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 381666007131 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 381666007132 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 381666007133 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 381666007134 RNA binding surface [nucleotide binding]; other site 381666007135 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 381666007136 active site 381666007137 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 381666007138 active site 381666007139 catalytic residues [active] 381666007140 metal binding site [ion binding]; metal-binding site 381666007141 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 381666007142 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 381666007143 nucleotide binding pocket [chemical binding]; other site 381666007144 K-X-D-G motif; other site 381666007145 catalytic site [active] 381666007146 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 381666007147 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 381666007148 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 381666007149 Dimer interface [polypeptide binding]; other site 381666007150 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 381666007151 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 381666007152 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 381666007153 Walker A/P-loop; other site 381666007154 ATP binding site [chemical binding]; other site 381666007155 Q-loop/lid; other site 381666007156 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 381666007157 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 381666007158 Q-loop/lid; other site 381666007159 ABC transporter signature motif; other site 381666007160 Walker B; other site 381666007161 D-loop; other site 381666007162 H-loop/switch region; other site 381666007163 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 381666007164 dinuclear metal binding motif [ion binding]; other site 381666007165 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 381666007166 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 381666007167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666007168 homodimer interface [polypeptide binding]; other site 381666007169 catalytic residue [active] 381666007170 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 381666007171 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 381666007172 trimer interface [polypeptide binding]; other site 381666007173 active site 381666007174 substrate binding site [chemical binding]; other site 381666007175 CoA binding site [chemical binding]; other site 381666007176 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 381666007177 ArsC family; Region: ArsC; pfam03960 381666007178 putative catalytic residues [active] 381666007179 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 381666007180 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 381666007181 metal binding site [ion binding]; metal-binding site 381666007182 dimer interface [polypeptide binding]; other site 381666007183 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 381666007184 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 381666007185 S-adenosylmethionine binding site [chemical binding]; other site 381666007186 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 381666007187 D-galactonate transporter; Region: 2A0114; TIGR00893 381666007188 putative substrate translocation pore; other site 381666007189 HipA N-terminal domain; Region: Couple_hipA; pfam13657 381666007190 HipA-like N-terminal domain; Region: HipA_N; pfam07805 381666007191 HipA-like C-terminal domain; Region: HipA_C; pfam07804 381666007192 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 381666007193 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 381666007194 non-specific DNA binding site [nucleotide binding]; other site 381666007195 salt bridge; other site 381666007196 sequence-specific DNA binding site [nucleotide binding]; other site 381666007197 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666007198 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 381666007199 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666007200 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 381666007201 acyl-activating enzyme (AAE) consensus motif; other site 381666007202 acyl-activating enzyme (AAE) consensus motif; other site 381666007203 putative AMP binding site [chemical binding]; other site 381666007204 putative active site [active] 381666007205 putative CoA binding site [chemical binding]; other site 381666007206 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666007207 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666007208 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 381666007209 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666007210 NAD(P) binding site [chemical binding]; other site 381666007211 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666007212 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666007213 MarR family; Region: MarR_2; pfam12802 381666007214 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 381666007215 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 381666007216 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 381666007217 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 381666007218 dimer interface [polypeptide binding]; other site 381666007219 conserved gate region; other site 381666007220 putative PBP binding loops; other site 381666007221 ABC-ATPase subunit interface; other site 381666007222 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 381666007223 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 381666007224 dimer interface [polypeptide binding]; other site 381666007225 conserved gate region; other site 381666007226 putative PBP binding loops; other site 381666007227 ABC-ATPase subunit interface; other site 381666007228 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 381666007229 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666007230 Walker A/P-loop; other site 381666007231 ATP binding site [chemical binding]; other site 381666007232 Q-loop/lid; other site 381666007233 ABC transporter signature motif; other site 381666007234 Walker B; other site 381666007235 D-loop; other site 381666007236 H-loop/switch region; other site 381666007237 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666007238 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666007239 Walker A/P-loop; other site 381666007240 ATP binding site [chemical binding]; other site 381666007241 Q-loop/lid; other site 381666007242 ABC transporter signature motif; other site 381666007243 Walker B; other site 381666007244 D-loop; other site 381666007245 H-loop/switch region; other site 381666007246 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666007247 amidase; Provisional; Region: PRK07042 381666007248 Amidase; Region: Amidase; cl11426 381666007249 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666007250 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666007251 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 381666007252 dimerization interface [polypeptide binding]; other site 381666007253 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 381666007254 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 381666007255 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 381666007256 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 381666007257 putative acyl-acceptor binding pocket; other site 381666007258 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 381666007259 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 381666007260 active site 381666007261 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 381666007262 active site 381666007263 catalytic residues [active] 381666007264 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 381666007265 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 381666007266 Putative methyltransferase; Region: Methyltransf_20; pfam12147 381666007267 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 381666007268 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 381666007269 putative active site [active] 381666007270 Zn binding site [ion binding]; other site 381666007271 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 381666007272 SxDxEG motif; other site 381666007273 active site 381666007274 metal binding site [ion binding]; metal-binding site 381666007275 homopentamer interface [polypeptide binding]; other site 381666007276 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 381666007277 homodimer interface [polypeptide binding]; other site 381666007278 homotetramer interface [polypeptide binding]; other site 381666007279 active site pocket [active] 381666007280 cleavage site 381666007281 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 381666007282 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 381666007283 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 381666007284 dimer interface [polypeptide binding]; other site 381666007285 conserved gate region; other site 381666007286 putative PBP binding loops; other site 381666007287 ABC-ATPase subunit interface; other site 381666007288 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 381666007289 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 381666007290 dimer interface [polypeptide binding]; other site 381666007291 conserved gate region; other site 381666007292 putative PBP binding loops; other site 381666007293 ABC-ATPase subunit interface; other site 381666007294 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 381666007295 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 381666007296 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 381666007297 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666007298 Walker A/P-loop; other site 381666007299 ATP binding site [chemical binding]; other site 381666007300 Q-loop/lid; other site 381666007301 ABC transporter signature motif; other site 381666007302 Walker B; other site 381666007303 D-loop; other site 381666007304 H-loop/switch region; other site 381666007305 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 381666007306 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666007307 Walker A/P-loop; other site 381666007308 ATP binding site [chemical binding]; other site 381666007309 Q-loop/lid; other site 381666007310 ABC transporter signature motif; other site 381666007311 Walker B; other site 381666007312 D-loop; other site 381666007313 H-loop/switch region; other site 381666007314 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 381666007315 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 381666007316 catalytic nucleophile [active] 381666007317 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 381666007318 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 381666007319 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 381666007320 putative active site [active] 381666007321 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 381666007322 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 381666007323 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 381666007324 ABC transporter; Region: ABC_tran_2; pfam12848 381666007325 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 381666007326 Methyltransferase domain; Region: Methyltransf_12; pfam08242 381666007327 S-adenosylmethionine binding site [chemical binding]; other site 381666007328 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 381666007329 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 381666007330 Bacterial sugar transferase; Region: Bac_transf; pfam02397 381666007331 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 381666007332 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666007333 disulfide bond formation protein B; Provisional; Region: PRK02110 381666007334 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 381666007335 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 381666007336 DNA repair protein RadA; Provisional; Region: PRK11823 381666007337 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 381666007338 Walker A motif; other site 381666007339 ATP binding site [chemical binding]; other site 381666007340 Walker B motif; other site 381666007341 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 381666007342 alanine racemase; Reviewed; Region: dadX; PRK03646 381666007343 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 381666007344 active site 381666007345 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 381666007346 substrate binding site [chemical binding]; other site 381666007347 catalytic residues [active] 381666007348 dimer interface [polypeptide binding]; other site 381666007349 lysophospholipid transporter LplT; Provisional; Region: PRK11195 381666007350 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 381666007351 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 381666007352 Fe-S cluster binding site [ion binding]; other site 381666007353 active site 381666007354 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 381666007355 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 381666007356 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 381666007357 Glycoprotease family; Region: Peptidase_M22; pfam00814 381666007358 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 381666007359 acyl-CoA binding pocket [chemical binding]; other site 381666007360 CoA binding site [chemical binding]; other site 381666007361 putative transporter; Provisional; Region: PRK10504 381666007362 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 381666007363 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 381666007364 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 381666007365 putative hydrophobic ligand binding site [chemical binding]; other site 381666007366 SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of...; Region: SGNH_arylesterase_like; cd01839 381666007367 active site 381666007368 oxyanion hole [active] 381666007369 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666007370 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 381666007371 PemK-like protein; Region: PemK; pfam02452 381666007372 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 381666007373 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 381666007374 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 381666007375 Beta-lactamase; Region: Beta-lactamase; pfam00144 381666007376 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 381666007377 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 381666007378 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666007379 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 381666007380 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 381666007381 active site pocket [active] 381666007382 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666007383 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 381666007384 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 381666007385 MOFRL family; Region: MOFRL; pfam05161 381666007386 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 381666007387 tartrate dehydrogenase; Region: TTC; TIGR02089 381666007388 transcriptional activator TtdR; Provisional; Region: PRK09801 381666007389 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666007390 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 381666007391 putative effector binding pocket; other site 381666007392 putative dimerization interface [polypeptide binding]; other site 381666007393 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666007394 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 381666007395 active site 381666007396 phosphorylation site [posttranslational modification] 381666007397 intermolecular recognition site; other site 381666007398 dimerization interface [polypeptide binding]; other site 381666007399 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 381666007400 DNA binding residues [nucleotide binding] 381666007401 dimerization interface [polypeptide binding]; other site 381666007402 MASE1; Region: MASE1; cl17823 381666007403 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 381666007404 Histidine kinase; Region: HisKA_3; pfam07730 381666007405 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 381666007406 ATP binding site [chemical binding]; other site 381666007407 Mg2+ binding site [ion binding]; other site 381666007408 G-X-G motif; other site 381666007409 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666007410 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666007411 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 381666007412 substrate binding site [chemical binding]; other site 381666007413 oxyanion hole (OAH) forming residues; other site 381666007414 trimer interface [polypeptide binding]; other site 381666007415 transcriptional regulator HdfR; Provisional; Region: PRK03601 381666007416 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666007417 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 381666007418 dimerization interface [polypeptide binding]; other site 381666007419 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666007420 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 381666007421 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 381666007422 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666007423 ATP-grasp domain; Region: ATP-grasp_4; cl17255 381666007424 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 381666007425 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 381666007426 carboxyltransferase (CT) interaction site; other site 381666007427 biotinylation site [posttranslational modification]; other site 381666007428 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666007429 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666007430 active site 381666007431 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 381666007432 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 381666007433 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666007434 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666007435 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666007436 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 381666007437 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 381666007438 DUF35 OB-fold domain; Region: DUF35; pfam01796 381666007439 thiolase; Provisional; Region: PRK06158 381666007440 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 381666007441 active site 381666007442 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666007443 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666007444 active site 381666007445 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666007446 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 381666007447 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 381666007448 acyl-activating enzyme (AAE) consensus motif; other site 381666007449 putative AMP binding site [chemical binding]; other site 381666007450 putative active site [active] 381666007451 acyl-activating enzyme (AAE) consensus motif; other site 381666007452 putative CoA binding site [chemical binding]; other site 381666007453 enoyl-CoA hydratase; Region: PLN02864 381666007454 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 381666007455 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 381666007456 dimer interaction site [polypeptide binding]; other site 381666007457 substrate-binding tunnel; other site 381666007458 active site 381666007459 catalytic site [active] 381666007460 substrate binding site [chemical binding]; other site 381666007461 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666007462 short chain dehydrogenase; Provisional; Region: PRK07791 381666007463 NAD(P) binding site [chemical binding]; other site 381666007464 active site 381666007465 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666007466 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 381666007467 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666007468 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666007469 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 381666007470 active site 381666007471 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 381666007472 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 381666007473 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 381666007474 Ferritin-like domain; Region: Ferritin; pfam00210 381666007475 dinuclear metal binding motif [ion binding]; other site 381666007476 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 381666007477 Ligand Binding Site [chemical binding]; other site 381666007478 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666007479 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 381666007480 Esterase/lipase [General function prediction only]; Region: COG1647 381666007481 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666007482 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666007483 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666007484 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 381666007485 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 381666007486 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 381666007487 active site 381666007488 phosphorylation site [posttranslational modification] 381666007489 intermolecular recognition site; other site 381666007490 dimerization interface [polypeptide binding]; other site 381666007491 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 381666007492 DNA binding site [nucleotide binding] 381666007493 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 381666007494 HAMP domain; Region: HAMP; pfam00672 381666007495 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 381666007496 dimer interface [polypeptide binding]; other site 381666007497 phosphorylation site [posttranslational modification] 381666007498 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 381666007499 ATP binding site [chemical binding]; other site 381666007500 Mg2+ binding site [ion binding]; other site 381666007501 G-X-G motif; other site 381666007502 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666007503 LysR family transcriptional regulator; Provisional; Region: PRK14997 381666007504 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 381666007505 putative effector binding pocket; other site 381666007506 putative dimerization interface [polypeptide binding]; other site 381666007507 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 381666007508 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 381666007509 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 381666007510 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 381666007511 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 381666007512 NAD(P) binding site [chemical binding]; other site 381666007513 homotetramer interface [polypeptide binding]; other site 381666007514 homodimer interface [polypeptide binding]; other site 381666007515 active site 381666007516 Phasin protein; Region: Phasin_2; pfam09361 381666007517 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 381666007518 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 381666007519 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 381666007520 motif II; other site 381666007521 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 381666007522 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 381666007523 putative DNA binding site [nucleotide binding]; other site 381666007524 putative Zn2+ binding site [ion binding]; other site 381666007525 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 381666007526 Sodium Bile acid symporter family; Region: SBF; cl17470 381666007527 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 381666007528 Low molecular weight phosphatase family; Region: LMWPc; cd00115 381666007529 active site 381666007530 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 381666007531 Low molecular weight phosphatase family; Region: LMWPc; cd00115 381666007532 active site 381666007533 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_20; cd07254 381666007534 putative metal binding site [ion binding]; other site 381666007535 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 381666007536 putative DNA binding site [nucleotide binding]; other site 381666007537 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 381666007538 Alkaline phosphatase homologues; Region: alkPPc; smart00098 381666007539 active site 381666007540 dimer interface [polypeptide binding]; other site 381666007541 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 381666007542 dimer interface [polypeptide binding]; other site 381666007543 Alkaline phosphatase homologues; Region: alkPPc; smart00098 381666007544 active site 381666007545 Outer membrane efflux protein; Region: OEP; pfam02321 381666007546 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 381666007547 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666007548 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 381666007549 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 381666007550 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 381666007551 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 381666007552 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 381666007553 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 381666007554 elongation factor P; Validated; Region: PRK00529 381666007555 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 381666007556 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 381666007557 RNA binding site [nucleotide binding]; other site 381666007558 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 381666007559 RNA binding site [nucleotide binding]; other site 381666007560 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 381666007561 hydrogenase 4 subunit B; Validated; Region: PRK06521 381666007562 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 381666007563 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 381666007564 NADH dehydrogenase; Region: NADHdh; cl00469 381666007565 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 381666007566 hydrogenase 4 subunit F; Validated; Region: PRK06458 381666007567 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 381666007568 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 381666007569 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 381666007570 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 381666007571 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 381666007572 ParG; Region: ParG; pfam09274 381666007573 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 381666007574 regulatory protein interface [polypeptide binding]; other site 381666007575 regulatory phosphorylation site [posttranslational modification]; other site 381666007576 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 381666007577 S-adenosylmethionine binding site [chemical binding]; other site 381666007578 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 381666007579 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 381666007580 Flagellin N-methylase; Region: FliB; pfam03692 381666007581 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 381666007582 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 381666007583 dimerization interface [polypeptide binding]; other site 381666007584 putative DNA binding site [nucleotide binding]; other site 381666007585 putative Zn2+ binding site [ion binding]; other site 381666007586 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 381666007587 active site residue [active] 381666007588 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666007589 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 381666007590 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666007591 putative substrate translocation pore; other site 381666007592 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 381666007593 tetramer interface [polypeptide binding]; other site 381666007594 active site 381666007595 Mg2+/Mn2+ binding site [ion binding]; other site 381666007596 isocitrate lyase; Region: PLN02892 381666007597 Helix-turn-helix domain; Region: HTH_18; pfam12833 381666007598 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666007599 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666007600 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 381666007601 Isochorismatase family; Region: Isochorismatase; pfam00857 381666007602 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 381666007603 catalytic triad [active] 381666007604 conserved cis-peptide bond; other site 381666007605 Dienelactone hydrolase family; Region: DLH; pfam01738 381666007606 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 381666007607 S-adenosylmethionine binding site [chemical binding]; other site 381666007608 malate synthase A; Region: malate_syn_A; TIGR01344 381666007609 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 381666007610 active site 381666007611 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 381666007612 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 381666007613 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666007614 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666007615 putative effector binding pocket; other site 381666007616 dimerization interface [polypeptide binding]; other site 381666007617 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 381666007618 Ligand Binding Site [chemical binding]; other site 381666007619 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 381666007620 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 381666007621 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 381666007622 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 381666007623 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 381666007624 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 381666007625 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 381666007626 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 381666007627 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 381666007628 isocitrate lyase; Provisional; Region: PRK15063 381666007629 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 381666007630 tetramer interface [polypeptide binding]; other site 381666007631 active site 381666007632 Mg2+/Mn2+ binding site [ion binding]; other site 381666007633 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666007634 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 381666007635 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 381666007636 putative active site pocket [active] 381666007637 dimerization interface [polypeptide binding]; other site 381666007638 putative catalytic residue [active] 381666007639 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 381666007640 thiamine pyrophosphate protein; Validated; Region: PRK08199 381666007641 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666007642 PYR/PP interface [polypeptide binding]; other site 381666007643 dimer interface [polypeptide binding]; other site 381666007644 TPP binding site [chemical binding]; other site 381666007645 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 381666007646 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 381666007647 TPP-binding site [chemical binding]; other site 381666007648 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 381666007649 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 381666007650 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 381666007651 active site 381666007652 phosphorylation site [posttranslational modification] 381666007653 intermolecular recognition site; other site 381666007654 dimerization interface [polypeptide binding]; other site 381666007655 LytTr DNA-binding domain; Region: LytTR; smart00850 381666007656 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 381666007657 Histidine kinase; Region: His_kinase; pfam06580 381666007658 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 381666007659 ATP binding site [chemical binding]; other site 381666007660 Mg2+ binding site [ion binding]; other site 381666007661 G-X-G motif; other site 381666007662 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 381666007663 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 381666007664 substrate binding site [chemical binding]; other site 381666007665 dimerization interface [polypeptide binding]; other site 381666007666 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 381666007667 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 381666007668 Walker A/P-loop; other site 381666007669 ATP binding site [chemical binding]; other site 381666007670 Q-loop/lid; other site 381666007671 ABC transporter signature motif; other site 381666007672 Walker B; other site 381666007673 D-loop; other site 381666007674 H-loop/switch region; other site 381666007675 TOBE-like domain; Region: TOBE_3; pfam12857 381666007676 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 381666007677 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 381666007678 dimer interface [polypeptide binding]; other site 381666007679 conserved gate region; other site 381666007680 putative PBP binding loops; other site 381666007681 ABC-ATPase subunit interface; other site 381666007682 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 381666007683 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 381666007684 dimer interface [polypeptide binding]; other site 381666007685 conserved gate region; other site 381666007686 putative PBP binding loops; other site 381666007687 ABC-ATPase subunit interface; other site 381666007688 Serine hydrolase; Region: Ser_hydrolase; pfam06821 381666007689 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666007690 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; cl00290 381666007691 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 381666007692 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 381666007693 Walker A/P-loop; other site 381666007694 ATP binding site [chemical binding]; other site 381666007695 Q-loop/lid; other site 381666007696 ABC transporter signature motif; other site 381666007697 Walker B; other site 381666007698 D-loop; other site 381666007699 H-loop/switch region; other site 381666007700 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 381666007701 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 381666007702 putative PBP binding loops; other site 381666007703 dimer interface [polypeptide binding]; other site 381666007704 ABC-ATPase subunit interface; other site 381666007705 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 381666007706 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 381666007707 active site 381666007708 dimer interface [polypeptide binding]; other site 381666007709 non-prolyl cis peptide bond; other site 381666007710 insertion regions; other site 381666007711 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 381666007712 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 381666007713 substrate binding pocket [chemical binding]; other site 381666007714 membrane-bound complex binding site; other site 381666007715 hinge residues; other site 381666007716 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 381666007717 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 381666007718 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 381666007719 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 381666007720 substrate binding pocket [chemical binding]; other site 381666007721 membrane-bound complex binding site; other site 381666007722 hinge residues; other site 381666007723 Ferritin-like domain; Region: Ferritin; pfam00210 381666007724 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 381666007725 dinuclear metal binding motif [ion binding]; other site 381666007726 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 381666007727 Clp amino terminal domain; Region: Clp_N; pfam02861 381666007728 Clp amino terminal domain; Region: Clp_N; pfam02861 381666007729 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 381666007730 Walker A motif; other site 381666007731 ATP binding site [chemical binding]; other site 381666007732 Walker B motif; other site 381666007733 arginine finger; other site 381666007734 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 381666007735 Walker A motif; other site 381666007736 ATP binding site [chemical binding]; other site 381666007737 Walker B motif; other site 381666007738 arginine finger; other site 381666007739 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 381666007740 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 381666007741 active site 2 [active] 381666007742 active site 1 [active] 381666007743 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 381666007744 active site 2 [active] 381666007745 active site 1 [active] 381666007746 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 381666007747 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666007748 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666007749 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 381666007750 acyl-activating enzyme (AAE) consensus motif; other site 381666007751 acyl-activating enzyme (AAE) consensus motif; other site 381666007752 putative AMP binding site [chemical binding]; other site 381666007753 putative active site [active] 381666007754 putative CoA binding site [chemical binding]; other site 381666007755 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 381666007756 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 381666007757 TM-ABC transporter signature motif; other site 381666007758 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 381666007759 TM-ABC transporter signature motif; other site 381666007760 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666007761 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 381666007762 Walker A/P-loop; other site 381666007763 ATP binding site [chemical binding]; other site 381666007764 Q-loop/lid; other site 381666007765 ABC transporter signature motif; other site 381666007766 Walker B; other site 381666007767 D-loop; other site 381666007768 H-loop/switch region; other site 381666007769 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666007770 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 381666007771 Walker A/P-loop; other site 381666007772 ATP binding site [chemical binding]; other site 381666007773 Q-loop/lid; other site 381666007774 ABC transporter signature motif; other site 381666007775 Walker B; other site 381666007776 D-loop; other site 381666007777 H-loop/switch region; other site 381666007778 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666007779 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 381666007780 putative ligand binding site [chemical binding]; other site 381666007781 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666007782 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 381666007783 substrate binding site [chemical binding]; other site 381666007784 oxyanion hole (OAH) forming residues; other site 381666007785 trimer interface [polypeptide binding]; other site 381666007786 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 381666007787 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666007788 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666007789 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666007790 chromosome condensation membrane protein; Provisional; Region: PRK14196 381666007791 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 381666007792 MoaE homodimer interface [polypeptide binding]; other site 381666007793 MoaD interaction [polypeptide binding]; other site 381666007794 active site residues [active] 381666007795 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 381666007796 MoaE interaction surface [polypeptide binding]; other site 381666007797 MoeB interaction surface [polypeptide binding]; other site 381666007798 thiocarboxylated glycine; other site 381666007799 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 381666007800 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 381666007801 dimer interface [polypeptide binding]; other site 381666007802 putative functional site; other site 381666007803 putative MPT binding site; other site 381666007804 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 381666007805 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 381666007806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666007807 catalytic residue [active] 381666007808 homoserine dehydrogenase; Provisional; Region: PRK06349 381666007809 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 381666007810 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 381666007811 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 381666007812 aminotransferase AlaT; Validated; Region: PRK09265 381666007813 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 381666007814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666007815 homodimer interface [polypeptide binding]; other site 381666007816 catalytic residue [active] 381666007817 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 381666007818 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 381666007819 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 381666007820 catalytic triad [active] 381666007821 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 381666007822 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 381666007823 putative active site [active] 381666007824 PhoH-like protein; Region: PhoH; pfam02562 381666007825 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 381666007826 NlpC/P60 family; Region: NLPC_P60; pfam00877 381666007827 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 381666007828 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 381666007829 replicative DNA helicase; Provisional; Region: PRK07004 381666007830 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 381666007831 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 381666007832 Walker A motif; other site 381666007833 ATP binding site [chemical binding]; other site 381666007834 Walker B motif; other site 381666007835 DNA binding loops [nucleotide binding] 381666007836 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 381666007837 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 381666007838 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 381666007839 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 381666007840 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 381666007841 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 381666007842 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 381666007843 active site 381666007844 homodimer interface [polypeptide binding]; other site 381666007845 homotetramer interface [polypeptide binding]; other site 381666007846 LexA repressor; Validated; Region: PRK00215 381666007847 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 381666007848 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 381666007849 Catalytic site [active] 381666007850 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 381666007851 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 381666007852 FMN binding site [chemical binding]; other site 381666007853 active site 381666007854 catalytic residues [active] 381666007855 substrate binding site [chemical binding]; other site 381666007856 Predicted flavoprotein [General function prediction only]; Region: COG0431 381666007857 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 381666007858 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 381666007859 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 381666007860 substrate binding site [chemical binding]; other site 381666007861 oxyanion hole (OAH) forming residues; other site 381666007862 trimer interface [polypeptide binding]; other site 381666007863 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 381666007864 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 381666007865 Tar ligand binding domain homologue; Region: TarH; pfam02203 381666007866 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 381666007867 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 381666007868 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666007869 dimer interface [polypeptide binding]; other site 381666007870 putative CheW interface [polypeptide binding]; other site 381666007871 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 381666007872 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 381666007873 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 381666007874 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 381666007875 G1 box; other site 381666007876 putative GEF interaction site [polypeptide binding]; other site 381666007877 GTP/Mg2+ binding site [chemical binding]; other site 381666007878 Switch I region; other site 381666007879 G2 box; other site 381666007880 G3 box; other site 381666007881 Switch II region; other site 381666007882 G4 box; other site 381666007883 G5 box; other site 381666007884 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 381666007885 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 381666007886 Transcriptional regulators [Transcription]; Region: MarR; COG1846 381666007887 MarR family; Region: MarR_2; pfam12802 381666007888 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666007889 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 381666007890 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666007891 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666007892 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 381666007893 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 381666007894 putative substrate translocation pore; other site 381666007895 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 381666007896 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 381666007897 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666007898 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666007899 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 381666007900 active site pocket [active] 381666007901 oxyanion hole [active] 381666007902 catalytic triad [active] 381666007903 active site nucleophile [active] 381666007904 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 381666007905 AroM protein; Region: AroM; pfam07302 381666007906 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666007907 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 381666007908 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 381666007909 RNA binding site [nucleotide binding]; other site 381666007910 active site 381666007911 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 381666007912 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 381666007913 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 381666007914 translation initiation factor IF-2; Region: IF-2; TIGR00487 381666007915 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 381666007916 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 381666007917 G1 box; other site 381666007918 putative GEF interaction site [polypeptide binding]; other site 381666007919 GTP/Mg2+ binding site [chemical binding]; other site 381666007920 Switch I region; other site 381666007921 G2 box; other site 381666007922 G3 box; other site 381666007923 Switch II region; other site 381666007924 G4 box; other site 381666007925 G5 box; other site 381666007926 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 381666007927 Translation-initiation factor 2; Region: IF-2; pfam11987 381666007928 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 381666007929 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 381666007930 NusA N-terminal domain; Region: NusA_N; pfam08529 381666007931 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 381666007932 RNA binding site [nucleotide binding]; other site 381666007933 homodimer interface [polypeptide binding]; other site 381666007934 NusA-like KH domain; Region: KH_5; pfam13184 381666007935 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 381666007936 G-X-X-G motif; other site 381666007937 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 381666007938 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 381666007939 ribosome maturation protein RimP; Reviewed; Region: PRK00092 381666007940 Sm and related proteins; Region: Sm_like; cl00259 381666007941 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 381666007942 putative oligomer interface [polypeptide binding]; other site 381666007943 putative RNA binding site [nucleotide binding]; other site 381666007944 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 381666007945 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 381666007946 RNA binding surface [nucleotide binding]; other site 381666007947 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 381666007948 probable active site [active] 381666007949 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 381666007950 Family description; Region: DsbD_2; pfam13386 381666007951 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 381666007952 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 381666007953 ligand binding site [chemical binding]; other site 381666007954 flexible hinge region; other site 381666007955 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 381666007956 putative switch regulator; other site 381666007957 non-specific DNA interactions [nucleotide binding]; other site 381666007958 DNA binding site [nucleotide binding] 381666007959 sequence specific DNA binding site [nucleotide binding]; other site 381666007960 putative cAMP binding site [chemical binding]; other site 381666007961 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 381666007962 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 381666007963 4Fe-4S binding domain; Region: Fer4_5; pfam12801 381666007964 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 381666007965 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 381666007966 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 381666007967 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 381666007968 Cytochrome c; Region: Cytochrom_C; pfam00034 381666007969 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 381666007970 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 381666007971 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 381666007972 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 381666007973 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 381666007974 Low-spin heme binding site [chemical binding]; other site 381666007975 Putative water exit pathway; other site 381666007976 Binuclear center (active site) [active] 381666007977 Putative proton exit pathway; other site 381666007978 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 381666007979 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 381666007980 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 381666007981 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 381666007982 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 381666007983 Predicted ATPase [General function prediction only]; Region: COG1485 381666007984 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 381666007985 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666007986 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 381666007987 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 381666007988 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 381666007989 E3 interaction surface; other site 381666007990 lipoyl attachment site [posttranslational modification]; other site 381666007991 e3 binding domain; Region: E3_binding; pfam02817 381666007992 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 381666007993 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 381666007994 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 381666007995 TPP-binding site [chemical binding]; other site 381666007996 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 381666007997 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 381666007998 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 381666007999 active site 381666008000 catalytic site [active] 381666008001 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 381666008002 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 381666008003 Walker A/P-loop; other site 381666008004 ATP binding site [chemical binding]; other site 381666008005 Q-loop/lid; other site 381666008006 ABC transporter signature motif; other site 381666008007 Walker B; other site 381666008008 D-loop; other site 381666008009 H-loop/switch region; other site 381666008010 TOBE domain; Region: TOBE_2; pfam08402 381666008011 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 381666008012 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 381666008013 dimer interface [polypeptide binding]; other site 381666008014 conserved gate region; other site 381666008015 putative PBP binding loops; other site 381666008016 ABC-ATPase subunit interface; other site 381666008017 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 381666008018 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 381666008019 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 381666008020 dimer interface [polypeptide binding]; other site 381666008021 ABC-ATPase subunit interface; other site 381666008022 putative PBP binding loops; other site 381666008023 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 381666008024 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 381666008025 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 381666008026 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 381666008027 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 381666008028 active site 381666008029 phosphorylation site [posttranslational modification] 381666008030 intermolecular recognition site; other site 381666008031 dimerization interface [polypeptide binding]; other site 381666008032 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 381666008033 Walker A motif; other site 381666008034 ATP binding site [chemical binding]; other site 381666008035 Walker B motif; other site 381666008036 arginine finger; other site 381666008037 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 381666008038 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 381666008039 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 381666008040 dimer interface [polypeptide binding]; other site 381666008041 phosphorylation site [posttranslational modification] 381666008042 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 381666008043 ATP binding site [chemical binding]; other site 381666008044 Mg2+ binding site [ion binding]; other site 381666008045 G-X-G motif; other site 381666008046 glutamine synthetase; Provisional; Region: glnA; PRK09469 381666008047 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 381666008048 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 381666008049 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 381666008050 active site residue [active] 381666008051 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 381666008052 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 381666008053 putative MPT binding site; other site 381666008054 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 381666008055 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 381666008056 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 381666008057 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 381666008058 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 381666008059 NodB motif; other site 381666008060 active site 381666008061 metal binding site [ion binding]; metal-binding site 381666008062 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 381666008063 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 381666008064 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 381666008065 ATP binding site [chemical binding]; other site 381666008066 putative Mg++ binding site [ion binding]; other site 381666008067 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 381666008068 nucleotide binding region [chemical binding]; other site 381666008069 ATP-binding site [chemical binding]; other site 381666008070 Helicase associated domain (HA2); Region: HA2; pfam04408 381666008071 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 381666008072 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 381666008073 N-acetylglutamate synthase; Validated; Region: PRK05279 381666008074 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 381666008075 putative feedback inhibition sensing region; other site 381666008076 putative nucleotide binding site [chemical binding]; other site 381666008077 putative substrate binding site [chemical binding]; other site 381666008078 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666008079 Coenzyme A binding pocket [chemical binding]; other site 381666008080 oxidative damage protection protein; Provisional; Region: PRK05408 381666008081 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 381666008082 tetramer (dimer of dimers) interface [polypeptide binding]; other site 381666008083 active site 381666008084 dimer interface [polypeptide binding]; other site 381666008085 transaldolase-like protein; Provisional; Region: PTZ00411 381666008086 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 381666008087 active site 381666008088 dimer interface [polypeptide binding]; other site 381666008089 catalytic residue [active] 381666008090 NAD-dependent deacetylase; Provisional; Region: PRK00481 381666008091 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 381666008092 NAD+ binding site [chemical binding]; other site 381666008093 substrate binding site [chemical binding]; other site 381666008094 Zn binding site [ion binding]; other site 381666008095 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 381666008096 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 381666008097 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 381666008098 ribonuclease R; Region: RNase_R; TIGR02063 381666008099 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 381666008100 RNB domain; Region: RNB; pfam00773 381666008101 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 381666008102 RNA binding site [nucleotide binding]; other site 381666008103 Rrf2 family protein; Region: rrf2_super; TIGR00738 381666008104 Transcriptional regulator; Region: Rrf2; pfam02082 381666008105 Transcriptional regulator; Region: Rrf2; cl17282 381666008106 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 381666008107 NADH(P)-binding; Region: NAD_binding_10; pfam13460 381666008108 NAD binding site [chemical binding]; other site 381666008109 substrate binding site [chemical binding]; other site 381666008110 putative active site [active] 381666008111 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 381666008112 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666008113 active site 381666008114 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 381666008115 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 381666008116 GDP-binding site [chemical binding]; other site 381666008117 ACT binding site; other site 381666008118 IMP binding site; other site 381666008119 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 381666008120 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 381666008121 dimer interface [polypeptide binding]; other site 381666008122 motif 1; other site 381666008123 active site 381666008124 motif 2; other site 381666008125 motif 3; other site 381666008126 HflC protein; Region: hflC; TIGR01932 381666008127 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 381666008128 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 381666008129 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 381666008130 HflK protein; Region: hflK; TIGR01933 381666008131 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 381666008132 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 381666008133 HflX GTPase family; Region: HflX; cd01878 381666008134 G1 box; other site 381666008135 GTP/Mg2+ binding site [chemical binding]; other site 381666008136 Switch I region; other site 381666008137 G2 box; other site 381666008138 G3 box; other site 381666008139 Switch II region; other site 381666008140 G4 box; other site 381666008141 G5 box; other site 381666008142 bacterial Hfq-like; Region: Hfq; cd01716 381666008143 hexamer interface [polypeptide binding]; other site 381666008144 Sm1 motif; other site 381666008145 RNA binding site [nucleotide binding]; other site 381666008146 Sm2 motif; other site 381666008147 GTP-binding protein Der; Reviewed; Region: PRK00093 381666008148 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 381666008149 G1 box; other site 381666008150 GTP/Mg2+ binding site [chemical binding]; other site 381666008151 Switch I region; other site 381666008152 G2 box; other site 381666008153 Switch II region; other site 381666008154 G3 box; other site 381666008155 G4 box; other site 381666008156 G5 box; other site 381666008157 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 381666008158 G1 box; other site 381666008159 GTP/Mg2+ binding site [chemical binding]; other site 381666008160 Switch I region; other site 381666008161 G2 box; other site 381666008162 G3 box; other site 381666008163 Switch II region; other site 381666008164 G4 box; other site 381666008165 G5 box; other site 381666008166 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 381666008167 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 381666008168 Trp docking motif [polypeptide binding]; other site 381666008169 active site 381666008170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 381666008171 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 381666008172 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 381666008173 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 381666008174 dimer interface [polypeptide binding]; other site 381666008175 motif 1; other site 381666008176 active site 381666008177 motif 2; other site 381666008178 motif 3; other site 381666008179 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 381666008180 anticodon binding site; other site 381666008181 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 381666008182 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 381666008183 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 381666008184 Helix-turn-helix domain; Region: HTH_25; pfam13413 381666008185 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 381666008186 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 381666008187 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 381666008188 binding surface 381666008189 TPR motif; other site 381666008190 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 381666008191 binding surface 381666008192 TPR motif; other site 381666008193 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 381666008194 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 381666008195 FeS/SAM binding site; other site 381666008196 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 381666008197 active site 381666008198 multimer interface [polypeptide binding]; other site 381666008199 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 381666008200 YccA-like proteins; Region: YccA_like; cd10433 381666008201 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 381666008202 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 381666008203 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 381666008204 S-adenosylmethionine binding site [chemical binding]; other site 381666008205 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 381666008206 putative catalytic site [active] 381666008207 putative metal binding site [ion binding]; other site 381666008208 putative phosphate binding site [ion binding]; other site 381666008209 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 381666008210 active site 381666008211 catalytic site [active] 381666008212 substrate binding site [chemical binding]; other site 381666008213 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 381666008214 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 381666008215 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 381666008216 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666008217 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 381666008218 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 381666008219 DNA binding residues [nucleotide binding] 381666008220 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 381666008221 Peptidase family M23; Region: Peptidase_M23; pfam01551 381666008222 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 381666008223 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 381666008224 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 381666008225 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666008226 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 381666008227 NAD(P) binding site [chemical binding]; other site 381666008228 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666008229 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666008230 trimer interface [polypeptide binding]; other site 381666008231 eyelet of channel; other site 381666008232 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 381666008233 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 381666008234 active site 381666008235 phosphorylation site [posttranslational modification] 381666008236 intermolecular recognition site; other site 381666008237 dimerization interface [polypeptide binding]; other site 381666008238 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 381666008239 DNA binding site [nucleotide binding] 381666008240 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 381666008241 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 381666008242 HAMP domain; Region: HAMP; pfam00672 381666008243 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 381666008244 dimer interface [polypeptide binding]; other site 381666008245 phosphorylation site [posttranslational modification] 381666008246 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 381666008247 ATP binding site [chemical binding]; other site 381666008248 Mg2+ binding site [ion binding]; other site 381666008249 G-X-G motif; other site 381666008250 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 381666008251 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 381666008252 dimer interface [polypeptide binding]; other site 381666008253 conserved gate region; other site 381666008254 putative PBP binding loops; other site 381666008255 ABC-ATPase subunit interface; other site 381666008256 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 381666008257 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 381666008258 Walker A/P-loop; other site 381666008259 ATP binding site [chemical binding]; other site 381666008260 Q-loop/lid; other site 381666008261 ABC transporter signature motif; other site 381666008262 Walker B; other site 381666008263 D-loop; other site 381666008264 H-loop/switch region; other site 381666008265 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 381666008266 NMT1-like family; Region: NMT1_2; pfam13379 381666008267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666008268 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 381666008269 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 381666008270 active site 381666008271 catalytic residues [active] 381666008272 metal binding site [ion binding]; metal-binding site 381666008273 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666008274 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666008275 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666008276 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666008277 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 381666008278 putative dimerization interface [polypeptide binding]; other site 381666008279 hypothetical protein; Validated; Region: PRK00153 381666008280 recombination protein RecR; Reviewed; Region: recR; PRK00076 381666008281 RecR protein; Region: RecR; pfam02132 381666008282 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 381666008283 putative active site [active] 381666008284 putative metal-binding site [ion binding]; other site 381666008285 tetramer interface [polypeptide binding]; other site 381666008286 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 381666008287 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 381666008288 Walker A motif; other site 381666008289 ATP binding site [chemical binding]; other site 381666008290 Walker B motif; other site 381666008291 DNA polymerase III subunit delta'; Validated; Region: PRK08485 381666008292 arginine finger; other site 381666008293 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 381666008294 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 381666008295 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 381666008296 active site 381666008297 dimer interface [polypeptide binding]; other site 381666008298 effector binding site; other site 381666008299 Cys-rich peptide, TIGR04165 family; Region: methano_modCys 381666008300 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 381666008301 Family description; Region: UvrD_C_2; pfam13538 381666008302 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 381666008303 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 381666008304 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 381666008305 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 381666008306 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 381666008307 catalytic residues [active] 381666008308 transcription termination factor Rho; Provisional; Region: rho; PRK09376 381666008309 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 381666008310 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 381666008311 RNA binding site [nucleotide binding]; other site 381666008312 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 381666008313 multimer interface [polypeptide binding]; other site 381666008314 Walker A motif; other site 381666008315 ATP binding site [chemical binding]; other site 381666008316 Walker B motif; other site 381666008317 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 381666008318 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 381666008319 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 381666008320 multidrug efflux protein; Reviewed; Region: PRK01766 381666008321 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 381666008322 cation binding site [ion binding]; other site 381666008323 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 381666008324 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 381666008325 HIGH motif; other site 381666008326 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 381666008327 active site 381666008328 KMSKS motif; other site 381666008329 hypothetical protein; Provisional; Region: PRK10279 381666008330 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 381666008331 nucleophile elbow; other site 381666008332 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 381666008333 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 381666008334 NlpC/P60 family; Region: NLPC_P60; pfam00877 381666008335 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 381666008336 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666008337 Walker A/P-loop; other site 381666008338 ATP binding site [chemical binding]; other site 381666008339 Q-loop/lid; other site 381666008340 ABC transporter signature motif; other site 381666008341 Walker B; other site 381666008342 D-loop; other site 381666008343 H-loop/switch region; other site 381666008344 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666008345 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666008346 Walker A/P-loop; other site 381666008347 ATP binding site [chemical binding]; other site 381666008348 Q-loop/lid; other site 381666008349 ABC transporter signature motif; other site 381666008350 Walker B; other site 381666008351 D-loop; other site 381666008352 H-loop/switch region; other site 381666008353 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666008354 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 381666008355 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 381666008356 dimer interface [polypeptide binding]; other site 381666008357 conserved gate region; other site 381666008358 putative PBP binding loops; other site 381666008359 ABC-ATPase subunit interface; other site 381666008360 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 381666008361 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 381666008362 dimer interface [polypeptide binding]; other site 381666008363 conserved gate region; other site 381666008364 putative PBP binding loops; other site 381666008365 ABC-ATPase subunit interface; other site 381666008366 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 381666008367 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 381666008368 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 381666008369 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 381666008370 NAD binding site [chemical binding]; other site 381666008371 homotetramer interface [polypeptide binding]; other site 381666008372 homodimer interface [polypeptide binding]; other site 381666008373 substrate binding site [chemical binding]; other site 381666008374 active site 381666008375 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 381666008376 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 381666008377 putative substrate translocation pore; other site 381666008378 piRNA pathway germ-plasm component; Region: Maelstrom; pfam13017 381666008379 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 381666008380 Ion channel; Region: Ion_trans_2; pfam07885 381666008381 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 381666008382 multidrug resistance protein MdtN; Provisional; Region: PRK10476 381666008383 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666008384 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666008385 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 381666008386 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 381666008387 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 381666008388 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666008389 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666008390 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666008391 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666008392 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 381666008393 putative dimerization interface [polypeptide binding]; other site 381666008394 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 381666008395 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 381666008396 tetramer interface [polypeptide binding]; other site 381666008397 active site 381666008398 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666008399 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666008400 Uncharacterized conserved protein [Function unknown]; Region: COG3777 381666008401 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 381666008402 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 381666008403 active site 2 [active] 381666008404 active site 1 [active] 381666008405 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666008406 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666008407 trimer interface [polypeptide binding]; other site 381666008408 eyelet of channel; other site 381666008409 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 381666008410 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666008411 metal binding site [ion binding]; metal-binding site 381666008412 active site 381666008413 I-site; other site 381666008414 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 381666008415 active site 381666008416 catalytic site [active] 381666008417 substrate binding site [chemical binding]; other site 381666008418 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 381666008419 rRNA binding site [nucleotide binding]; other site 381666008420 predicted 30S ribosome binding site; other site 381666008421 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 381666008422 catalytic core [active] 381666008423 Putative hemolysin [General function prediction only]; Region: COG3176 381666008424 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 381666008425 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 381666008426 polyphosphate kinase; Provisional; Region: PRK05443 381666008427 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 381666008428 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 381666008429 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 381666008430 putative domain interface [polypeptide binding]; other site 381666008431 putative active site [active] 381666008432 catalytic site [active] 381666008433 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 381666008434 putative domain interface [polypeptide binding]; other site 381666008435 putative active site [active] 381666008436 catalytic site [active] 381666008437 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 381666008438 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 381666008439 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 381666008440 dimer interface [polypeptide binding]; other site 381666008441 phosphorylation site [posttranslational modification] 381666008442 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 381666008443 ATP binding site [chemical binding]; other site 381666008444 Mg2+ binding site [ion binding]; other site 381666008445 G-X-G motif; other site 381666008446 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 381666008447 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 381666008448 active site 381666008449 phosphorylation site [posttranslational modification] 381666008450 intermolecular recognition site; other site 381666008451 dimerization interface [polypeptide binding]; other site 381666008452 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 381666008453 DNA binding site [nucleotide binding] 381666008454 transcriptional regulator PhoU; Provisional; Region: PRK11115 381666008455 PhoU domain; Region: PhoU; pfam01895 381666008456 PhoU domain; Region: PhoU; pfam01895 381666008457 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 381666008458 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 381666008459 Walker A/P-loop; other site 381666008460 ATP binding site [chemical binding]; other site 381666008461 Q-loop/lid; other site 381666008462 ABC transporter signature motif; other site 381666008463 Walker B; other site 381666008464 D-loop; other site 381666008465 H-loop/switch region; other site 381666008466 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 381666008467 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 381666008468 dimer interface [polypeptide binding]; other site 381666008469 conserved gate region; other site 381666008470 putative PBP binding loops; other site 381666008471 ABC-ATPase subunit interface; other site 381666008472 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 381666008473 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 381666008474 dimer interface [polypeptide binding]; other site 381666008475 conserved gate region; other site 381666008476 putative PBP binding loops; other site 381666008477 ABC-ATPase subunit interface; other site 381666008478 PBP superfamily domain; Region: PBP_like_2; cl17296 381666008479 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 381666008480 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 381666008481 active site 381666008482 substrate binding site [chemical binding]; other site 381666008483 metal binding site [ion binding]; metal-binding site 381666008484 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 381666008485 dihydropteroate synthase; Region: DHPS; TIGR01496 381666008486 substrate binding pocket [chemical binding]; other site 381666008487 dimer interface [polypeptide binding]; other site 381666008488 inhibitor binding site; inhibition site 381666008489 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 381666008490 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 381666008491 Walker A motif; other site 381666008492 ATP binding site [chemical binding]; other site 381666008493 Walker B motif; other site 381666008494 arginine finger; other site 381666008495 Peptidase family M41; Region: Peptidase_M41; pfam01434 381666008496 FtsJ-like methyltransferase; Region: FtsJ; cl17430 381666008497 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 381666008498 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 381666008499 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 381666008500 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 381666008501 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 381666008502 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 381666008503 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 381666008504 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666008505 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 381666008506 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 381666008507 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666008508 ATP-grasp domain; Region: ATP-grasp_4; cl17255 381666008509 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 381666008510 IMP binding site; other site 381666008511 dimer interface [polypeptide binding]; other site 381666008512 interdomain contacts; other site 381666008513 partial ornithine binding site; other site 381666008514 leucine export protein LeuE; Provisional; Region: PRK10958 381666008515 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 381666008516 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 381666008517 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 381666008518 catalytic site [active] 381666008519 subunit interface [polypeptide binding]; other site 381666008520 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 381666008521 homotrimer interaction site [polypeptide binding]; other site 381666008522 putative active site [active] 381666008523 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 381666008524 active site 381666008525 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666008526 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 381666008527 acyl-activating enzyme (AAE) consensus motif; other site 381666008528 AMP binding site [chemical binding]; other site 381666008529 active site 381666008530 CoA binding site [chemical binding]; other site 381666008531 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666008532 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666008533 active site 381666008534 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666008535 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 381666008536 substrate binding site [chemical binding]; other site 381666008537 oxyanion hole (OAH) forming residues; other site 381666008538 trimer interface [polypeptide binding]; other site 381666008539 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666008540 classical (c) SDRs; Region: SDR_c; cd05233 381666008541 NAD(P) binding site [chemical binding]; other site 381666008542 active site 381666008543 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 381666008544 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 381666008545 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 381666008546 active site 381666008547 FMN binding site [chemical binding]; other site 381666008548 substrate binding site [chemical binding]; other site 381666008549 homotetramer interface [polypeptide binding]; other site 381666008550 catalytic residue [active] 381666008551 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 381666008552 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666008553 acyl-activating enzyme (AAE) consensus motif; other site 381666008554 AMP binding site [chemical binding]; other site 381666008555 active site 381666008556 CoA binding site [chemical binding]; other site 381666008557 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 381666008558 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 381666008559 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666008560 catalytic residue [active] 381666008561 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 381666008562 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 381666008563 Methyltransferase domain; Region: Methyltransf_11; pfam08241 381666008564 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 381666008565 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 381666008566 RNA/DNA hybrid binding site [nucleotide binding]; other site 381666008567 active site 381666008568 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 381666008569 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 381666008570 active site 381666008571 catalytic site [active] 381666008572 substrate binding site [chemical binding]; other site 381666008573 integrase; Provisional; Region: int; PHA02601 381666008574 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 381666008575 active site 381666008576 DNA binding site [nucleotide binding] 381666008577 Int/Topo IB signature motif; other site 381666008578 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666008579 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666008580 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666008581 putative effector binding pocket; other site 381666008582 dimerization interface [polypeptide binding]; other site 381666008583 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 381666008584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666008585 NAD(P) binding site [chemical binding]; other site 381666008586 active site 381666008587 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 381666008588 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 381666008589 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; cl00083 381666008590 MobA/MobL family; Region: MobA_MobL; pfam03389 381666008591 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 381666008592 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 381666008593 AAA domain; Region: AAA_21; pfam13304 381666008594 Walker A/P-loop; other site 381666008595 ATP binding site [chemical binding]; other site 381666008596 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 381666008597 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 381666008598 putative active site [active] 381666008599 putative NTP binding site [chemical binding]; other site 381666008600 putative nucleic acid binding site [nucleotide binding]; other site 381666008601 Protein of unknown function DUF262; Region: DUF262; pfam03235 381666008602 Protein of unknown function DUF262; Region: DUF262; pfam03235 381666008603 Isochorismatase family; Region: Isochorismatase; pfam00857 381666008604 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 381666008605 catalytic triad [active] 381666008606 conserved cis-peptide bond; other site 381666008607 PAS fold; Region: PAS_4; pfam08448 381666008608 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 381666008609 putative active site [active] 381666008610 heme pocket [chemical binding]; other site 381666008611 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 381666008612 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666008613 metal binding site [ion binding]; metal-binding site 381666008614 active site 381666008615 I-site; other site 381666008616 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 381666008617 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 381666008618 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 381666008619 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 381666008620 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 381666008621 dimer interface [polypeptide binding]; other site 381666008622 conserved gate region; other site 381666008623 putative PBP binding loops; other site 381666008624 ABC-ATPase subunit interface; other site 381666008625 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 381666008626 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 381666008627 dimer interface [polypeptide binding]; other site 381666008628 conserved gate region; other site 381666008629 putative PBP binding loops; other site 381666008630 ABC-ATPase subunit interface; other site 381666008631 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 381666008632 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 381666008633 Walker A/P-loop; other site 381666008634 ATP binding site [chemical binding]; other site 381666008635 Q-loop/lid; other site 381666008636 ABC transporter signature motif; other site 381666008637 Walker B; other site 381666008638 D-loop; other site 381666008639 H-loop/switch region; other site 381666008640 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 381666008641 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 381666008642 Walker A/P-loop; other site 381666008643 ATP binding site [chemical binding]; other site 381666008644 Q-loop/lid; other site 381666008645 ABC transporter signature motif; other site 381666008646 Walker B; other site 381666008647 D-loop; other site 381666008648 H-loop/switch region; other site 381666008649 TOBE domain; Region: TOBE_2; pfam08402 381666008650 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 381666008651 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 381666008652 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 381666008653 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 381666008654 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 381666008655 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 381666008656 putative active site [active] 381666008657 putative substrate binding site [chemical binding]; other site 381666008658 putative cosubstrate binding site; other site 381666008659 catalytic site [active] 381666008660 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 381666008661 nudix motif; other site 381666008662 glycerol kinase; Provisional; Region: glpK; PRK00047 381666008663 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 381666008664 N- and C-terminal domain interface [polypeptide binding]; other site 381666008665 active site 381666008666 MgATP binding site [chemical binding]; other site 381666008667 catalytic site [active] 381666008668 metal binding site [ion binding]; metal-binding site 381666008669 glycerol binding site [chemical binding]; other site 381666008670 homotetramer interface [polypeptide binding]; other site 381666008671 homodimer interface [polypeptide binding]; other site 381666008672 FBP binding site [chemical binding]; other site 381666008673 protein IIAGlc interface [polypeptide binding]; other site 381666008674 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 381666008675 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 381666008676 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 381666008677 Predicted integral membrane protein [Function unknown]; Region: COG5615 381666008678 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 381666008679 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 381666008680 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 381666008681 dimerization interface [polypeptide binding]; other site 381666008682 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666008683 metal binding site [ion binding]; metal-binding site 381666008684 active site 381666008685 I-site; other site 381666008686 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666008687 ligand binding site [chemical binding]; other site 381666008688 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 381666008689 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 381666008690 homodimer interface [polypeptide binding]; other site 381666008691 substrate-cofactor binding pocket; other site 381666008692 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666008693 catalytic residue [active] 381666008694 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 381666008695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 381666008696 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 381666008697 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 381666008698 acetyl-CoA synthetase; Provisional; Region: PRK00174 381666008699 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 381666008700 active site 381666008701 CoA binding site [chemical binding]; other site 381666008702 acyl-activating enzyme (AAE) consensus motif; other site 381666008703 AMP binding site [chemical binding]; other site 381666008704 acetate binding site [chemical binding]; other site 381666008705 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 381666008706 EamA-like transporter family; Region: EamA; pfam00892 381666008707 hypothetical protein; Provisional; Region: PRK05208 381666008708 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 381666008709 Fumarase C-terminus; Region: Fumerase_C; pfam05683 381666008710 glutamate racemase; Provisional; Region: PRK00865 381666008711 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 381666008712 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 381666008713 Walker A motif; other site 381666008714 ATP binding site [chemical binding]; other site 381666008715 Walker B motif; other site 381666008716 arginine finger; other site 381666008717 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 381666008718 Walker A motif; other site 381666008719 ATP binding site [chemical binding]; other site 381666008720 Walker B motif; other site 381666008721 arginine finger; other site 381666008722 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 381666008723 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 381666008724 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 381666008725 TolR protein; Region: tolR; TIGR02801 381666008726 Hemin uptake protein hemP; Region: hemP; pfam10636 381666008727 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 381666008728 Predicted membrane protein [Function unknown]; Region: COG2855 381666008729 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 381666008730 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666008731 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 381666008732 putative dimerization interface [polypeptide binding]; other site 381666008733 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 381666008734 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 381666008735 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 381666008736 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 381666008737 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 381666008738 GIY-YIG motif/motif A; other site 381666008739 active site 381666008740 catalytic site [active] 381666008741 putative DNA binding site [nucleotide binding]; other site 381666008742 metal binding site [ion binding]; metal-binding site 381666008743 UvrB/uvrC motif; Region: UVR; pfam02151 381666008744 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 381666008745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 381666008746 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 381666008747 elongation factor P; Validated; Region: PRK00529 381666008748 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 381666008749 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 381666008750 RNA binding site [nucleotide binding]; other site 381666008751 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 381666008752 RNA binding site [nucleotide binding]; other site 381666008753 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 381666008754 beta-hexosaminidase; Provisional; Region: PRK05337 381666008755 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 381666008756 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 381666008757 active site 381666008758 hydrophilic channel; other site 381666008759 dimerization interface [polypeptide binding]; other site 381666008760 catalytic residues [active] 381666008761 active site lid [active] 381666008762 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 381666008763 Recombination protein O N terminal; Region: RecO_N; pfam11967 381666008764 Recombination protein O C terminal; Region: RecO_C; pfam02565 381666008765 GTPase Era; Reviewed; Region: era; PRK00089 381666008766 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 381666008767 G1 box; other site 381666008768 GTP/Mg2+ binding site [chemical binding]; other site 381666008769 Switch I region; other site 381666008770 G2 box; other site 381666008771 Switch II region; other site 381666008772 G3 box; other site 381666008773 G4 box; other site 381666008774 G5 box; other site 381666008775 KH domain; Region: KH_2; pfam07650 381666008776 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 381666008777 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 381666008778 dimerization interface [polypeptide binding]; other site 381666008779 active site 381666008780 metal binding site [ion binding]; metal-binding site 381666008781 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 381666008782 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 381666008783 signal peptidase I; Provisional; Region: PRK10861 381666008784 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 381666008785 Catalytic site [active] 381666008786 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 381666008787 GTP-binding protein LepA; Provisional; Region: PRK05433 381666008788 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 381666008789 G1 box; other site 381666008790 putative GEF interaction site [polypeptide binding]; other site 381666008791 GTP/Mg2+ binding site [chemical binding]; other site 381666008792 Switch I region; other site 381666008793 G2 box; other site 381666008794 G3 box; other site 381666008795 Switch II region; other site 381666008796 G4 box; other site 381666008797 G5 box; other site 381666008798 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 381666008799 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 381666008800 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 381666008801 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 381666008802 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 381666008803 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 381666008804 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 381666008805 protein binding site [polypeptide binding]; other site 381666008806 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 381666008807 protein binding site [polypeptide binding]; other site 381666008808 anti-sigma E factor; Provisional; Region: rseB; PRK09455 381666008809 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 381666008810 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 381666008811 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 381666008812 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 381666008813 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666008814 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 381666008815 DNA binding residues [nucleotide binding] 381666008816 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 381666008817 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 381666008818 dimer interface [polypeptide binding]; other site 381666008819 active site 381666008820 acyl carrier protein; Provisional; Region: acpP; PRK00982 381666008821 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 381666008822 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 381666008823 NAD(P) binding site [chemical binding]; other site 381666008824 homotetramer interface [polypeptide binding]; other site 381666008825 homodimer interface [polypeptide binding]; other site 381666008826 active site 381666008827 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 381666008828 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 381666008829 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 381666008830 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 381666008831 dimer interface [polypeptide binding]; other site 381666008832 active site 381666008833 CoA binding pocket [chemical binding]; other site 381666008834 putative phosphate acyltransferase; Provisional; Region: PRK05331 381666008835 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 381666008836 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 381666008837 Maf-like protein; Region: Maf; pfam02545 381666008838 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 381666008839 active site 381666008840 dimer interface [polypeptide binding]; other site 381666008841 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 381666008842 putative SAM binding site [chemical binding]; other site 381666008843 homodimer interface [polypeptide binding]; other site 381666008844 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 381666008845 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 381666008846 tandem repeat interface [polypeptide binding]; other site 381666008847 oligomer interface [polypeptide binding]; other site 381666008848 active site residues [active] 381666008849 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 381666008850 iron-sulfur cluster [ion binding]; other site 381666008851 [2Fe-2S] cluster binding site [ion binding]; other site 381666008852 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 381666008853 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 381666008854 motif II; other site 381666008855 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 381666008856 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 381666008857 RNA binding surface [nucleotide binding]; other site 381666008858 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 381666008859 active site 381666008860 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 381666008861 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 381666008862 homodimer interface [polypeptide binding]; other site 381666008863 oligonucleotide binding site [chemical binding]; other site 381666008864 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 381666008865 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 381666008866 FeS/SAM binding site; other site 381666008867 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 381666008868 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 381666008869 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 381666008870 GTP binding site; other site 381666008871 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 381666008872 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 381666008873 dimer interface [polypeptide binding]; other site 381666008874 putative functional site; other site 381666008875 putative MPT binding site; other site 381666008876 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 381666008877 RmuC family; Region: RmuC; pfam02646 381666008878 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 381666008879 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 381666008880 dimerization interface [polypeptide binding]; other site 381666008881 ligand binding site [chemical binding]; other site 381666008882 NADP binding site [chemical binding]; other site 381666008883 catalytic site [active] 381666008884 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 381666008885 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 381666008886 transmembrane helices; other site 381666008887 Uncharacterized conserved protein [Function unknown]; Region: COG1556 381666008888 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 381666008889 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 381666008890 active site 381666008891 Ferredoxin [Energy production and conversion]; Region: COG1146 381666008892 4Fe-4S binding domain; Region: Fer4; cl02805 381666008893 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 381666008894 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 381666008895 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666008896 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666008897 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 381666008898 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666008899 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666008900 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666008901 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666008902 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666008903 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666008904 active site 381666008905 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666008906 Cupin domain; Region: Cupin_2; pfam07883 381666008907 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 381666008908 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 381666008909 active site 381666008910 phosphorylation site [posttranslational modification] 381666008911 intermolecular recognition site; other site 381666008912 dimerization interface [polypeptide binding]; other site 381666008913 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 381666008914 DNA binding site [nucleotide binding] 381666008915 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 381666008916 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 381666008917 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 381666008918 Ligand Binding Site [chemical binding]; other site 381666008919 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 381666008920 GAF domain; Region: GAF_3; pfam13492 381666008921 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 381666008922 dimer interface [polypeptide binding]; other site 381666008923 phosphorylation site [posttranslational modification] 381666008924 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 381666008925 ATP binding site [chemical binding]; other site 381666008926 Mg2+ binding site [ion binding]; other site 381666008927 G-X-G motif; other site 381666008928 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 381666008929 nodulation ABC transporter NodI; Provisional; Region: PRK13537 381666008930 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666008931 Walker A/P-loop; other site 381666008932 ATP binding site [chemical binding]; other site 381666008933 Q-loop/lid; other site 381666008934 ABC transporter signature motif; other site 381666008935 Walker B; other site 381666008936 D-loop; other site 381666008937 H-loop/switch region; other site 381666008938 ABC-2 type transporter; Region: ABC2_membrane; cl17235 381666008939 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 381666008940 multidrug efflux system protein; Provisional; Region: PRK11431 381666008941 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 381666008942 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 381666008943 homodimer interface [polypeptide binding]; other site 381666008944 substrate-cofactor binding pocket; other site 381666008945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666008946 catalytic residue [active] 381666008947 amidophosphoribosyltransferase; Provisional; Region: PRK09246 381666008948 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 381666008949 active site 381666008950 tetramer interface [polypeptide binding]; other site 381666008951 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666008952 active site 381666008953 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 381666008954 Colicin V production protein; Region: Colicin_V; pfam02674 381666008955 Sporulation related domain; Region: SPOR; pfam05036 381666008956 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 381666008957 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 381666008958 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 381666008959 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 381666008960 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 381666008961 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 381666008962 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 381666008963 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 381666008964 substrate binding site [chemical binding]; other site 381666008965 active site 381666008966 catalytic residues [active] 381666008967 heterodimer interface [polypeptide binding]; other site 381666008968 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 381666008969 DNA methylase; Region: N6_N4_Mtase; pfam01555 381666008970 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 381666008971 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 381666008972 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666008973 catalytic residue [active] 381666008974 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 381666008975 active site 381666008976 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 381666008977 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 381666008978 dimerization interface 3.5A [polypeptide binding]; other site 381666008979 active site 381666008980 FimV N-terminal domain; Region: FimV_core; TIGR03505 381666008981 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 381666008982 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 381666008983 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 381666008984 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 381666008985 tartrate dehydrogenase; Region: TTC; TIGR02089 381666008986 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 381666008987 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 381666008988 substrate binding site [chemical binding]; other site 381666008989 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 381666008990 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 381666008991 substrate binding site [chemical binding]; other site 381666008992 ligand binding site [chemical binding]; other site 381666008993 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666008994 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 381666008995 Walker A/P-loop; other site 381666008996 ATP binding site [chemical binding]; other site 381666008997 Q-loop/lid; other site 381666008998 ABC transporter signature motif; other site 381666008999 Walker B; other site 381666009000 D-loop; other site 381666009001 H-loop/switch region; other site 381666009002 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 381666009003 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 381666009004 Walker A/P-loop; other site 381666009005 ATP binding site [chemical binding]; other site 381666009006 Q-loop/lid; other site 381666009007 ABC transporter signature motif; other site 381666009008 Walker B; other site 381666009009 D-loop; other site 381666009010 H-loop/switch region; other site 381666009011 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 381666009012 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 381666009013 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 381666009014 TM-ABC transporter signature motif; other site 381666009015 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666009016 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 381666009017 TM-ABC transporter signature motif; other site 381666009018 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 381666009019 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 381666009020 dimerization interface [polypeptide binding]; other site 381666009021 ligand binding site [chemical binding]; other site 381666009022 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 381666009023 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 381666009024 dimer interface [polypeptide binding]; other site 381666009025 active site 381666009026 citrylCoA binding site [chemical binding]; other site 381666009027 NADH binding [chemical binding]; other site 381666009028 cationic pore residues; other site 381666009029 oxalacetate/citrate binding site [chemical binding]; other site 381666009030 coenzyme A binding site [chemical binding]; other site 381666009031 catalytic triad [active] 381666009032 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 381666009033 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 381666009034 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 381666009035 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 381666009036 L-aspartate oxidase; Provisional; Region: PRK06175 381666009037 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 381666009038 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 381666009039 SdhC subunit interface [polypeptide binding]; other site 381666009040 proximal heme binding site [chemical binding]; other site 381666009041 cardiolipin binding site; other site 381666009042 Iron-sulfur protein interface; other site 381666009043 proximal quinone binding site [chemical binding]; other site 381666009044 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 381666009045 Iron-sulfur protein interface; other site 381666009046 proximal quinone binding site [chemical binding]; other site 381666009047 SdhD (CybS) interface [polypeptide binding]; other site 381666009048 proximal heme binding site [chemical binding]; other site 381666009049 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666009050 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666009051 DNA-binding site [nucleotide binding]; DNA binding site 381666009052 UTRA domain; Region: UTRA; pfam07702 381666009053 malate dehydrogenase; Provisional; Region: PRK05442 381666009054 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 381666009055 NAD(P) binding site [chemical binding]; other site 381666009056 dimer interface [polypeptide binding]; other site 381666009057 malate binding site [chemical binding]; other site 381666009058 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 381666009059 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 381666009060 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 381666009061 dimer interface [polypeptide binding]; other site 381666009062 active site 381666009063 citrylCoA binding site [chemical binding]; other site 381666009064 oxalacetate/citrate binding site [chemical binding]; other site 381666009065 coenzyme A binding site [chemical binding]; other site 381666009066 catalytic triad [active] 381666009067 aconitate hydratase; Provisional; Region: acnA; PRK12881 381666009068 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 381666009069 substrate binding site [chemical binding]; other site 381666009070 ligand binding site [chemical binding]; other site 381666009071 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 381666009072 substrate binding site [chemical binding]; other site 381666009073 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 381666009074 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 381666009075 S-adenosylmethionine binding site [chemical binding]; other site 381666009076 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 381666009077 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 381666009078 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 381666009079 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 381666009080 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 381666009081 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 381666009082 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 381666009083 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 381666009084 Ligand Binding Site [chemical binding]; other site 381666009085 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 381666009086 dimerization interface [polypeptide binding]; other site 381666009087 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 381666009088 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666009089 putative CheW interface [polypeptide binding]; other site 381666009090 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 381666009091 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 381666009092 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 381666009093 putative active site [active] 381666009094 heat shock protein 90; Provisional; Region: PRK05218 381666009095 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 381666009096 ATP binding site [chemical binding]; other site 381666009097 Mg2+ binding site [ion binding]; other site 381666009098 G-X-G motif; other site 381666009099 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 381666009100 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666009101 DNA-binding site [nucleotide binding]; DNA binding site 381666009102 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 381666009103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666009104 homodimer interface [polypeptide binding]; other site 381666009105 catalytic residue [active] 381666009106 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 381666009107 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 381666009108 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 381666009109 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 381666009110 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 381666009111 EamA-like transporter family; Region: EamA; cl17759 381666009112 EamA-like transporter family; Region: EamA; pfam00892 381666009113 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 381666009114 homotrimer interaction site [polypeptide binding]; other site 381666009115 putative active site [active] 381666009116 Cupin domain; Region: Cupin_2; cl17218 381666009117 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 381666009118 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 381666009119 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666009120 homodimer interface [polypeptide binding]; other site 381666009121 catalytic residue [active] 381666009122 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666009123 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 381666009124 putative C-terminal domain interface [polypeptide binding]; other site 381666009125 putative GSH binding site (G-site) [chemical binding]; other site 381666009126 putative dimer interface [polypeptide binding]; other site 381666009127 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 381666009128 putative N-terminal domain interface [polypeptide binding]; other site 381666009129 putative dimer interface [polypeptide binding]; other site 381666009130 putative substrate binding pocket (H-site) [chemical binding]; other site 381666009131 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 381666009132 L-lactate permease; Region: Lactate_perm; cl00701 381666009133 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 381666009134 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 381666009135 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 381666009136 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666009137 Walker A/P-loop; other site 381666009138 ATP binding site [chemical binding]; other site 381666009139 Q-loop/lid; other site 381666009140 ABC transporter signature motif; other site 381666009141 Walker B; other site 381666009142 D-loop; other site 381666009143 H-loop/switch region; other site 381666009144 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 381666009145 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 381666009146 CAP-like domain; other site 381666009147 active site 381666009148 primary dimer interface [polypeptide binding]; other site 381666009149 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 381666009150 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 381666009151 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666009152 catalytic residue [active] 381666009153 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 381666009154 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 381666009155 ATP binding site [chemical binding]; other site 381666009156 Mg2+ binding site [ion binding]; other site 381666009157 G-X-G motif; other site 381666009158 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 381666009159 anchoring element; other site 381666009160 dimer interface [polypeptide binding]; other site 381666009161 ATP binding site [chemical binding]; other site 381666009162 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 381666009163 active site 381666009164 metal binding site [ion binding]; metal-binding site 381666009165 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 381666009166 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 381666009167 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666009168 putative substrate translocation pore; other site 381666009169 ABC transporter ATPase component; Reviewed; Region: PRK11147 381666009170 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 381666009171 Walker A/P-loop; other site 381666009172 ATP binding site [chemical binding]; other site 381666009173 Q-loop/lid; other site 381666009174 ABC transporter signature motif; other site 381666009175 Walker B; other site 381666009176 D-loop; other site 381666009177 H-loop/switch region; other site 381666009178 ABC transporter; Region: ABC_tran_2; pfam12848 381666009179 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 381666009180 benzoate transporter; Region: benE; TIGR00843 381666009181 Benzoate membrane transport protein; Region: BenE; pfam03594 381666009182 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 381666009183 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 381666009184 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 381666009185 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 381666009186 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 381666009187 Protein phosphatase 2C; Region: PP2C; pfam00481 381666009188 active site 381666009189 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 381666009190 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 381666009191 Walker A motif; other site 381666009192 ATP binding site [chemical binding]; other site 381666009193 Walker B motif; other site 381666009194 arginine finger; other site 381666009195 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666009196 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 381666009197 ligand binding site [chemical binding]; other site 381666009198 flexible hinge region; other site 381666009199 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 381666009200 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666009201 ligand binding site [chemical binding]; other site 381666009202 flexible hinge region; other site 381666009203 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 381666009204 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 381666009205 putative active site [active] 381666009206 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 381666009207 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666009208 Walker A/P-loop; other site 381666009209 ATP binding site [chemical binding]; other site 381666009210 Q-loop/lid; other site 381666009211 ABC transporter signature motif; other site 381666009212 Walker B; other site 381666009213 D-loop; other site 381666009214 H-loop/switch region; other site 381666009215 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 381666009216 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 381666009217 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 381666009218 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666009219 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666009220 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 381666009221 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 381666009222 phosphopeptide binding site; other site 381666009223 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 381666009224 phosphopeptide binding site; other site 381666009225 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 381666009226 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666009227 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 381666009228 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 381666009229 Uncharacterized conserved protein [Function unknown]; Region: COG1262 381666009230 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 381666009231 Protein kinase domain; Region: Pkinase; pfam00069 381666009232 Catalytic domain of Protein Kinases; Region: PKc; cd00180 381666009233 active site 381666009234 ATP binding site [chemical binding]; other site 381666009235 substrate binding site [chemical binding]; other site 381666009236 activation loop (A-loop); other site 381666009237 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 381666009238 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 381666009239 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 381666009240 ATP binding site [chemical binding]; other site 381666009241 Mg++ binding site [ion binding]; other site 381666009242 motif III; other site 381666009243 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 381666009244 nucleotide binding region [chemical binding]; other site 381666009245 ATP-binding site [chemical binding]; other site 381666009246 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 381666009247 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 381666009248 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 381666009249 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 381666009250 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 381666009251 thymidylate synthase; Reviewed; Region: thyA; PRK01827 381666009252 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 381666009253 dimerization interface [polypeptide binding]; other site 381666009254 active site 381666009255 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 381666009256 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 381666009257 folate binding site [chemical binding]; other site 381666009258 NADP+ binding site [chemical binding]; other site 381666009259 peptidase PmbA; Provisional; Region: PRK11040 381666009260 hypothetical protein; Provisional; Region: PRK05255 381666009261 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 381666009262 MPT binding site; other site 381666009263 trimer interface [polypeptide binding]; other site 381666009264 Membrane transport protein; Region: Mem_trans; cl09117 381666009265 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 381666009266 catalytic site [active] 381666009267 putative active site [active] 381666009268 putative substrate binding site [chemical binding]; other site 381666009269 dimer interface [polypeptide binding]; other site 381666009270 Peptidase family M48; Region: Peptidase_M48; pfam01435 381666009271 GTPase RsgA; Reviewed; Region: PRK00098 381666009272 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 381666009273 RNA binding site [nucleotide binding]; other site 381666009274 homodimer interface [polypeptide binding]; other site 381666009275 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 381666009276 GTPase/Zn-binding domain interface [polypeptide binding]; other site 381666009277 GTP/Mg2+ binding site [chemical binding]; other site 381666009278 G4 box; other site 381666009279 G5 box; other site 381666009280 G1 box; other site 381666009281 Switch I region; other site 381666009282 G2 box; other site 381666009283 G3 box; other site 381666009284 Switch II region; other site 381666009285 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 381666009286 CobD/CbiB family protein; Provisional; Region: PRK07630 381666009287 Pirin-related protein [General function prediction only]; Region: COG1741 381666009288 Pirin; Region: Pirin; pfam02678 381666009289 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 381666009290 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 381666009291 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666009292 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 381666009293 dimerization interface [polypeptide binding]; other site 381666009294 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 381666009295 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 381666009296 active site 381666009297 HIGH motif; other site 381666009298 nucleotide binding site [chemical binding]; other site 381666009299 active site 381666009300 KMSKS motif; other site 381666009301 helicase 45; Provisional; Region: PTZ00424 381666009302 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 381666009303 ATP binding site [chemical binding]; other site 381666009304 Mg++ binding site [ion binding]; other site 381666009305 motif III; other site 381666009306 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 381666009307 nucleotide binding region [chemical binding]; other site 381666009308 ATP-binding site [chemical binding]; other site 381666009309 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 381666009310 Coenzyme A transferase; Region: CoA_trans; smart00882 381666009311 Coenzyme A transferase; Region: CoA_trans; cl17247 381666009312 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666009313 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 381666009314 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666009315 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 381666009316 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666009317 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666009318 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 381666009319 dimerization interface [polypeptide binding]; other site 381666009320 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 381666009321 nucleoside/Zn binding site; other site 381666009322 dimer interface [polypeptide binding]; other site 381666009323 catalytic motif [active] 381666009324 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 381666009325 Phosphoesterase family; Region: Phosphoesterase; pfam04185 381666009326 Domain of unknown function (DUF756); Region: DUF756; pfam05506 381666009327 Domain of unknown function (DUF756); Region: DUF756; pfam05506 381666009328 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 381666009329 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 381666009330 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 381666009331 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 381666009332 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666009333 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 381666009334 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 381666009335 DNA binding residues [nucleotide binding] 381666009336 DNA primase; Validated; Region: dnaG; PRK05667 381666009337 CHC2 zinc finger; Region: zf-CHC2; pfam01807 381666009338 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 381666009339 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 381666009340 active site 381666009341 metal binding site [ion binding]; metal-binding site 381666009342 interdomain interaction site; other site 381666009343 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 381666009344 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 381666009345 Yqey-like protein; Region: YqeY; pfam09424 381666009346 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 381666009347 HI0933-like protein; Region: HI0933_like; pfam03486 381666009348 UGMP family protein; Validated; Region: PRK09604 381666009349 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 381666009350 putative GTP cyclohydrolase; Provisional; Region: PRK13674 381666009351 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 381666009352 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 381666009353 TPP-binding site; other site 381666009354 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 381666009355 PYR/PP interface [polypeptide binding]; other site 381666009356 dimer interface [polypeptide binding]; other site 381666009357 TPP binding site [chemical binding]; other site 381666009358 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 381666009359 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 381666009360 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 381666009361 substrate binding pocket [chemical binding]; other site 381666009362 chain length determination region; other site 381666009363 substrate-Mg2+ binding site; other site 381666009364 catalytic residues [active] 381666009365 aspartate-rich region 1; other site 381666009366 active site lid residues [active] 381666009367 aspartate-rich region 2; other site 381666009368 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 381666009369 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 381666009370 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 381666009371 [2Fe-2S] cluster binding site [ion binding]; other site 381666009372 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 381666009373 alpha subunit interface [polypeptide binding]; other site 381666009374 active site 381666009375 substrate binding site [chemical binding]; other site 381666009376 Fe binding site [ion binding]; other site 381666009377 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 381666009378 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 381666009379 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 381666009380 active site residue [active] 381666009381 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 381666009382 active site residue [active] 381666009383 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 381666009384 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 381666009385 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 381666009386 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 381666009387 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666009388 DNA polymerase I; Provisional; Region: PRK05755 381666009389 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 381666009390 active site 381666009391 metal binding site 1 [ion binding]; metal-binding site 381666009392 putative 5' ssDNA interaction site; other site 381666009393 metal binding site 3; metal-binding site 381666009394 metal binding site 2 [ion binding]; metal-binding site 381666009395 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 381666009396 putative DNA binding site [nucleotide binding]; other site 381666009397 putative metal binding site [ion binding]; other site 381666009398 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 381666009399 active site 381666009400 catalytic site [active] 381666009401 substrate binding site [chemical binding]; other site 381666009402 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 381666009403 active site 381666009404 DNA binding site [nucleotide binding] 381666009405 catalytic site [active] 381666009406 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 381666009407 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 381666009408 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 381666009409 putative active site [active] 381666009410 putative substrate binding site [chemical binding]; other site 381666009411 ATP binding site [chemical binding]; other site 381666009412 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666009413 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 381666009414 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666009415 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 381666009416 putative catalytic cysteine [active] 381666009417 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 381666009418 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666009419 acyl-activating enzyme (AAE) consensus motif; other site 381666009420 Subfamily of fatty acid CoA ligase (FACL) similar to Fum10p of Gibberella moniliformis; Region: FACL_fum10p_like; cd05926 381666009421 putative AMP binding site [chemical binding]; other site 381666009422 putative active site [active] 381666009423 acyl-activating enzyme (AAE) consensus motif; other site 381666009424 putative CoA binding site [chemical binding]; other site 381666009425 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 381666009426 D-galactonate transporter; Region: 2A0114; TIGR00893 381666009427 putative substrate translocation pore; other site 381666009428 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 381666009429 Part of AAA domain; Region: AAA_19; pfam13245 381666009430 Family description; Region: UvrD_C_2; pfam13538 381666009431 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 381666009432 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 381666009433 HIGH motif; other site 381666009434 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 381666009435 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 381666009436 active site 381666009437 KMSKS motif; other site 381666009438 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 381666009439 tRNA binding surface [nucleotide binding]; other site 381666009440 anticodon binding site; other site 381666009441 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 381666009442 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 381666009443 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 381666009444 active site 381666009445 tetramer interface; other site 381666009446 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666009447 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666009448 DNA-binding site [nucleotide binding]; DNA binding site 381666009449 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 381666009450 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666009451 DNA-binding site [nucleotide binding]; DNA binding site 381666009452 FCD domain; Region: FCD; pfam07729 381666009453 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 381666009454 dimer interface [polypeptide binding]; other site 381666009455 conserved gate region; other site 381666009456 putative PBP binding loops; other site 381666009457 ABC-ATPase subunit interface; other site 381666009458 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666009459 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 381666009460 dimer interface [polypeptide binding]; other site 381666009461 conserved gate region; other site 381666009462 putative PBP binding loops; other site 381666009463 ABC-ATPase subunit interface; other site 381666009464 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 381666009465 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 381666009466 Walker A/P-loop; other site 381666009467 ATP binding site [chemical binding]; other site 381666009468 Q-loop/lid; other site 381666009469 ABC transporter signature motif; other site 381666009470 Walker B; other site 381666009471 D-loop; other site 381666009472 H-loop/switch region; other site 381666009473 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666009474 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 381666009475 substrate binding pocket [chemical binding]; other site 381666009476 membrane-bound complex binding site; other site 381666009477 hinge residues; other site 381666009478 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 381666009479 galactarate dehydratase; Region: galactar-dH20; TIGR03248 381666009480 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 381666009481 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 381666009482 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 381666009483 CPxP motif; other site 381666009484 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 381666009485 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 381666009486 nudix motif; other site 381666009487 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 381666009488 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 381666009489 tetramer interface [polypeptide binding]; other site 381666009490 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666009491 catalytic residue [active] 381666009492 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 381666009493 active site 1 [active] 381666009494 dimer interface [polypeptide binding]; other site 381666009495 hexamer interface [polypeptide binding]; other site 381666009496 active site 2 [active] 381666009497 aldolase II superfamily protein; Provisional; Region: PRK07044 381666009498 intersubunit interface [polypeptide binding]; other site 381666009499 active site 381666009500 Zn2+ binding site [ion binding]; other site 381666009501 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 381666009502 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666009503 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666009504 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 381666009505 dimerization interface [polypeptide binding]; other site 381666009506 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 381666009507 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 381666009508 dimer interface [polypeptide binding]; other site 381666009509 active site residues [active] 381666009510 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 381666009511 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 381666009512 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 381666009513 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 381666009514 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 381666009515 motif 1; other site 381666009516 active site 381666009517 motif 2; other site 381666009518 motif 3; other site 381666009519 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 381666009520 DHHA1 domain; Region: DHHA1; pfam02272 381666009521 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666009522 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666009523 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 381666009524 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666009525 potassium/proton antiporter; Reviewed; Region: PRK05326 381666009526 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 381666009527 TrkA-C domain; Region: TrkA_C; pfam02080 381666009528 Transporter associated domain; Region: CorC_HlyC; smart01091 381666009529 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 381666009530 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 381666009531 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 381666009532 putative deacylase active site [active] 381666009533 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 381666009534 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 381666009535 dimer interface [polypeptide binding]; other site 381666009536 active site 381666009537 heme binding site [chemical binding]; other site 381666009538 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 381666009539 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666009540 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666009541 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 381666009542 dimerization interface [polypeptide binding]; other site 381666009543 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666009544 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 381666009545 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 381666009546 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 381666009547 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 381666009548 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666009549 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666009550 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 381666009551 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 381666009552 active site 381666009553 HIGH motif; other site 381666009554 nucleotide binding site [chemical binding]; other site 381666009555 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 381666009556 KMSKS motif; other site 381666009557 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 381666009558 S4 domain; Region: S4_2; pfam13275 381666009559 MAPEG family; Region: MAPEG; cl09190 381666009560 Uncharacterized conserved protein [Function unknown]; Region: COG2353 381666009561 YaeQ protein; Region: YaeQ; pfam07152 381666009562 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 381666009563 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 381666009564 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 381666009565 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 381666009566 putative active site pocket [active] 381666009567 dimerization interface [polypeptide binding]; other site 381666009568 putative catalytic residue [active] 381666009569 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 381666009570 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 381666009571 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 381666009572 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 381666009573 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666009574 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 381666009575 acyl-activating enzyme (AAE) consensus motif; other site 381666009576 putative AMP binding site [chemical binding]; other site 381666009577 putative active site [active] 381666009578 putative CoA binding site [chemical binding]; other site 381666009579 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 381666009580 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 381666009581 catalytic residues [active] 381666009582 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 381666009583 Hemerythrin; Region: Hemerythrin; cd12107 381666009584 AAA domain; Region: AAA_33; pfam13671 381666009585 RNA helicase; Region: RNA_helicase; pfam00910 381666009586 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 381666009587 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 381666009588 putative ATP binding site [chemical binding]; other site 381666009589 putative substrate interface [chemical binding]; other site 381666009590 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 381666009591 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 381666009592 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 381666009593 putative substrate translocation pore; other site 381666009594 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666009595 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 381666009596 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 381666009597 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 381666009598 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 381666009599 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 381666009600 S-adenosylmethionine binding site [chemical binding]; other site 381666009601 Protein of unknown function DUF72; Region: DUF72; pfam01904 381666009602 methionine sulfoxide reductase A; Provisional; Region: PRK14054 381666009603 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666009604 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666009605 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 381666009606 acyl-activating enzyme (AAE) consensus motif; other site 381666009607 putative AMP binding site [chemical binding]; other site 381666009608 putative active site [active] 381666009609 acyl-activating enzyme (AAE) consensus motif; other site 381666009610 putative CoA binding site [chemical binding]; other site 381666009611 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666009612 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666009613 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666009614 active site 381666009615 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666009616 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 381666009617 Transcriptional regulators [Transcription]; Region: MarR; COG1846 381666009618 MarR family; Region: MarR_2; pfam12802 381666009619 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666009620 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 381666009621 putative DNA binding site [nucleotide binding]; other site 381666009622 putative Zn2+ binding site [ion binding]; other site 381666009623 AsnC family; Region: AsnC_trans_reg; pfam01037 381666009624 arylformamidase; Region: trp_arylform; TIGR03035 381666009625 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 381666009626 kynureninase; Region: kynureninase; TIGR01814 381666009627 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666009628 catalytic residue [active] 381666009629 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 381666009630 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666009631 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666009632 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 381666009633 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666009634 FAD binding site [chemical binding]; other site 381666009635 substrate binding pocket [chemical binding]; other site 381666009636 catalytic base [active] 381666009637 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 381666009638 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 381666009639 dimer interface [polypeptide binding]; other site 381666009640 decamer (pentamer of dimers) interface [polypeptide binding]; other site 381666009641 catalytic triad [active] 381666009642 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 381666009643 Predicted membrane protein [Function unknown]; Region: COG5393 381666009644 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 381666009645 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 381666009646 PAS fold; Region: PAS_3; pfam08447 381666009647 putative active site [active] 381666009648 heme pocket [chemical binding]; other site 381666009649 PAS fold; Region: PAS; pfam00989 381666009650 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 381666009651 putative active site [active] 381666009652 heme pocket [chemical binding]; other site 381666009653 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 381666009654 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666009655 metal binding site [ion binding]; metal-binding site 381666009656 active site 381666009657 I-site; other site 381666009658 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 381666009659 Predicted transporter component [General function prediction only]; Region: COG2391 381666009660 Sulphur transport; Region: Sulf_transp; pfam04143 381666009661 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 381666009662 Ligand Binding Site [chemical binding]; other site 381666009663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 381666009664 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666009665 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 381666009666 ligand binding site [chemical binding]; other site 381666009667 translocation protein TolB; Provisional; Region: tolB; PRK02889 381666009668 TolB amino-terminal domain; Region: TolB_N; pfam04052 381666009669 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 381666009670 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 381666009671 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 381666009672 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 381666009673 TolA protein; Region: tolA_full; TIGR02794 381666009674 TonB C terminal; Region: TonB_2; pfam13103 381666009675 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 381666009676 TolR protein; Region: tolR; TIGR02801 381666009677 TolQ protein; Region: tolQ; TIGR02796 381666009678 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 381666009679 active site 381666009680 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 381666009681 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 381666009682 dimer interface [polypeptide binding]; other site 381666009683 active site 381666009684 glycine-pyridoxal phosphate binding site [chemical binding]; other site 381666009685 folate binding site [chemical binding]; other site 381666009686 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 381666009687 ATP cone domain; Region: ATP-cone; pfam03477 381666009688 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 381666009689 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 381666009690 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 381666009691 PilX N-terminal; Region: PilX_N; pfam14341 381666009692 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 381666009693 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 381666009694 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 381666009695 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 381666009696 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 381666009697 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 381666009698 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 381666009699 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 381666009700 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 381666009701 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 381666009702 Type II transport protein GspH; Region: GspH; pfam12019 381666009703 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 381666009704 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 381666009705 catalytic motif [active] 381666009706 Zn binding site [ion binding]; other site 381666009707 RibD C-terminal domain; Region: RibD_C; cl17279 381666009708 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 381666009709 Lumazine binding domain; Region: Lum_binding; pfam00677 381666009710 Lumazine binding domain; Region: Lum_binding; pfam00677 381666009711 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 381666009712 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 381666009713 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 381666009714 dimerization interface [polypeptide binding]; other site 381666009715 active site 381666009716 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 381666009717 homopentamer interface [polypeptide binding]; other site 381666009718 active site 381666009719 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 381666009720 putative RNA binding site [nucleotide binding]; other site 381666009721 aminotransferase; Validated; Region: PRK07337 381666009722 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 381666009723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666009724 homodimer interface [polypeptide binding]; other site 381666009725 catalytic residue [active] 381666009726 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 381666009727 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 381666009728 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666009729 catalytic residue [active] 381666009730 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 381666009731 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 381666009732 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 381666009733 acyl-activating enzyme (AAE) consensus motif; other site 381666009734 putative AMP binding site [chemical binding]; other site 381666009735 putative active site [active] 381666009736 putative CoA binding site [chemical binding]; other site 381666009737 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 381666009738 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666009739 putative C-terminal domain interface [polypeptide binding]; other site 381666009740 putative GSH binding site (G-site) [chemical binding]; other site 381666009741 putative dimer interface [polypeptide binding]; other site 381666009742 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 381666009743 putative N-terminal domain interface [polypeptide binding]; other site 381666009744 putative dimer interface [polypeptide binding]; other site 381666009745 putative substrate binding pocket (H-site) [chemical binding]; other site 381666009746 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 381666009747 Aldose 1-epimerase, similar to Synechocystis Slr1438; Region: Aldose_epim_Slr1438; cd09025 381666009748 active site 381666009749 catalytic residues [active] 381666009750 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666009751 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666009752 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666009753 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666009754 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666009755 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 381666009756 dimerization interface [polypeptide binding]; other site 381666009757 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 381666009758 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 381666009759 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 381666009760 S-adenosylmethionine binding site [chemical binding]; other site 381666009761 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 381666009762 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 381666009763 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666009764 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666009765 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666009766 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666009767 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666009768 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 381666009769 Protein export membrane protein; Region: SecD_SecF; cl14618 381666009770 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 381666009771 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 381666009772 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 381666009773 S-adenosylmethionine binding site [chemical binding]; other site 381666009774 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 381666009775 active site residue [active] 381666009776 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 381666009777 META domain; Region: META; pfam03724 381666009778 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 381666009779 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 381666009780 O-Antigen ligase; Region: Wzy_C; pfam04932 381666009781 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666009782 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 381666009783 putative ADP-binding pocket [chemical binding]; other site 381666009784 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 381666009785 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 381666009786 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 381666009787 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 381666009788 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 381666009789 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 381666009790 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 381666009791 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 381666009792 active site 381666009793 substrate binding site [chemical binding]; other site 381666009794 metal binding site [ion binding]; metal-binding site 381666009795 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 381666009796 Bacterial sugar transferase; Region: Bac_transf; pfam02397 381666009797 This family is most closely related to the GT1 family of glycosyltransferases and is named after WbdM in Escherichia coli. In general glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor...; Region: GT1_WbdM_like; cd04951 381666009798 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666009799 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 381666009800 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 381666009801 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 381666009802 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666009803 putative ADP-binding pocket [chemical binding]; other site 381666009804 hypothetical protein; Provisional; Region: PRK07233 381666009805 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 381666009806 hydroxyglutarate oxidase; Provisional; Region: PRK11728 381666009807 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 381666009808 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 381666009809 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 381666009810 substrate binding site; other site 381666009811 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 381666009812 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 381666009813 Ligand binding site; other site 381666009814 Putative Catalytic site; other site 381666009815 DXD motif; other site 381666009816 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 381666009817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666009818 NAD(P) binding site [chemical binding]; other site 381666009819 active site 381666009820 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 381666009821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666009822 NAD(P) binding site [chemical binding]; other site 381666009823 active site 381666009824 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 381666009825 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666009826 putative ADP-binding pocket [chemical binding]; other site 381666009827 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666009828 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 381666009829 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 381666009830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666009831 NAD(P) binding site [chemical binding]; other site 381666009832 active site 381666009833 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 381666009834 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 381666009835 NADP-binding site; other site 381666009836 homotetramer interface [polypeptide binding]; other site 381666009837 substrate binding site [chemical binding]; other site 381666009838 homodimer interface [polypeptide binding]; other site 381666009839 active site 381666009840 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666009841 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 381666009842 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 381666009843 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666009844 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 381666009845 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 381666009846 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 381666009847 Walker A/P-loop; other site 381666009848 ATP binding site [chemical binding]; other site 381666009849 Q-loop/lid; other site 381666009850 ABC transporter signature motif; other site 381666009851 Walker B; other site 381666009852 D-loop; other site 381666009853 H-loop/switch region; other site 381666009854 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 381666009855 putative carbohydrate binding site [chemical binding]; other site 381666009856 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 381666009857 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 381666009858 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 381666009859 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 381666009860 Substrate binding site; other site 381666009861 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 381666009862 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 381666009863 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 381666009864 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 381666009865 substrate binding site; other site 381666009866 tetramer interface; other site 381666009867 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 381666009868 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 381666009869 NADP binding site [chemical binding]; other site 381666009870 active site 381666009871 putative substrate binding site [chemical binding]; other site 381666009872 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 381666009873 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 381666009874 NAD binding site [chemical binding]; other site 381666009875 substrate binding site [chemical binding]; other site 381666009876 homodimer interface [polypeptide binding]; other site 381666009877 active site 381666009878 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 381666009879 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 381666009880 active site 381666009881 metal binding site [ion binding]; metal-binding site 381666009882 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 381666009883 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 381666009884 putative acyl-acceptor binding pocket; other site 381666009885 dihydroorotase; Provisional; Region: PRK07627 381666009886 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 381666009887 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 381666009888 active site 381666009889 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 381666009890 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 381666009891 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 381666009892 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666009893 active site 381666009894 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 381666009895 hypothetical protein; Validated; Region: PRK00228 381666009896 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 381666009897 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 381666009898 RNA binding surface [nucleotide binding]; other site 381666009899 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 381666009900 active site 381666009901 uracil binding [chemical binding]; other site 381666009902 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 381666009903 HemY protein N-terminus; Region: HemY_N; pfam07219 381666009904 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 381666009905 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 381666009906 active site 381666009907 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 381666009908 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 381666009909 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 381666009910 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 381666009911 domain interfaces; other site 381666009912 active site 381666009913 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 381666009914 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 381666009915 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 381666009916 dinuclear metal binding motif [ion binding]; other site 381666009917 RNA polymerase sigma factor; Provisional; Region: PRK12514 381666009918 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666009919 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 381666009920 DNA binding residues [nucleotide binding] 381666009921 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 381666009922 Anti-sigma-K factor rskA; Region: RskA; pfam10099 381666009923 argininosuccinate lyase; Provisional; Region: PRK00855 381666009924 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 381666009925 active sites [active] 381666009926 tetramer interface [polypeptide binding]; other site 381666009927 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 381666009928 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 381666009929 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 381666009930 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 381666009931 oligomeric interface; other site 381666009932 putative active site [active] 381666009933 homodimer interface [polypeptide binding]; other site 381666009934 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 381666009935 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 381666009936 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 381666009937 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666009938 catalytic residue [active] 381666009939 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 381666009940 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 381666009941 trimer interface [polypeptide binding]; other site 381666009942 active site 381666009943 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 381666009944 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 381666009945 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 381666009946 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 381666009947 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 381666009948 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 381666009949 [4Fe-4S] binding site [ion binding]; other site 381666009950 molybdopterin cofactor binding site; other site 381666009951 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 381666009952 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 381666009953 molybdopterin cofactor binding site; other site 381666009954 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 381666009955 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 381666009956 4Fe-4S binding domain; Region: Fer4; pfam00037 381666009957 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 381666009958 4Fe-4S binding domain; Region: Fer4; pfam00037 381666009959 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 381666009960 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 381666009961 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 381666009962 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 381666009963 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 381666009964 antiporter inner membrane protein; Provisional; Region: PRK11670 381666009965 Domain of unknown function DUF59; Region: DUF59; pfam01883 381666009966 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 381666009967 Walker A motif; other site 381666009968 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 381666009969 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666009970 ligand binding site [chemical binding]; other site 381666009971 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 381666009972 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 381666009973 active site 381666009974 HIGH motif; other site 381666009975 KMSKS motif; other site 381666009976 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 381666009977 tRNA binding surface [nucleotide binding]; other site 381666009978 anticodon binding site; other site 381666009979 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 381666009980 dimer interface [polypeptide binding]; other site 381666009981 putative tRNA-binding site [nucleotide binding]; other site 381666009982 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 381666009983 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666009984 ATP-grasp domain; Region: ATP-grasp_4; cl17255 381666009985 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 381666009986 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 381666009987 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 381666009988 carboxyltransferase (CT) interaction site; other site 381666009989 biotinylation site [posttranslational modification]; other site 381666009990 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 381666009991 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 381666009992 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 381666009993 acyl-CoA synthetase; Validated; Region: PRK06178 381666009994 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666009995 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666009996 acyl-activating enzyme (AAE) consensus motif; other site 381666009997 AMP binding site [chemical binding]; other site 381666009998 active site 381666009999 CoA binding site [chemical binding]; other site 381666010000 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666010001 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666010002 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666010003 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 381666010004 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 381666010005 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 381666010006 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 381666010007 dimer interface [polypeptide binding]; other site 381666010008 conserved gate region; other site 381666010009 putative PBP binding loops; other site 381666010010 ABC-ATPase subunit interface; other site 381666010011 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 381666010012 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 381666010013 dimer interface [polypeptide binding]; other site 381666010014 conserved gate region; other site 381666010015 putative PBP binding loops; other site 381666010016 ABC-ATPase subunit interface; other site 381666010017 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 381666010018 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666010019 Walker A/P-loop; other site 381666010020 ATP binding site [chemical binding]; other site 381666010021 Q-loop/lid; other site 381666010022 ABC transporter signature motif; other site 381666010023 Walker B; other site 381666010024 D-loop; other site 381666010025 H-loop/switch region; other site 381666010026 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 381666010027 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 381666010028 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666010029 Walker A/P-loop; other site 381666010030 ATP binding site [chemical binding]; other site 381666010031 Q-loop/lid; other site 381666010032 ABC transporter signature motif; other site 381666010033 Walker B; other site 381666010034 D-loop; other site 381666010035 H-loop/switch region; other site 381666010036 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666010037 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 381666010038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 381666010039 Family of unknown function (DUF490); Region: DUF490; pfam04357 381666010040 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 381666010041 Surface antigen; Region: Bac_surface_Ag; pfam01103 381666010042 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 381666010043 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 381666010044 pantoate--beta-alanine ligase; Region: panC; TIGR00018 381666010045 Pantoate-beta-alanine ligase; Region: PanC; cd00560 381666010046 active site 381666010047 ATP-binding site [chemical binding]; other site 381666010048 pantoate-binding site; other site 381666010049 HXXH motif; other site 381666010050 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 381666010051 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 381666010052 cobyric acid synthase; Provisional; Region: PRK00784 381666010053 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 381666010054 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 381666010055 catalytic triad [active] 381666010056 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 381666010057 homotrimer interface [polypeptide binding]; other site 381666010058 Walker A motif; other site 381666010059 GTP binding site [chemical binding]; other site 381666010060 Walker B motif; other site 381666010061 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 381666010062 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 381666010063 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 381666010064 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666010065 homodimer interface [polypeptide binding]; other site 381666010066 catalytic residue [active] 381666010067 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 381666010068 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 381666010069 cobalamin binding residues [chemical binding]; other site 381666010070 putative BtuC binding residues; other site 381666010071 dimer interface [polypeptide binding]; other site 381666010072 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 381666010073 catalytic core [active] 381666010074 cobalamin synthase; Reviewed; Region: cobS; PRK00235 381666010075 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 381666010076 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 381666010077 active site pocket [active] 381666010078 putative dimer interface [polypeptide binding]; other site 381666010079 putative cataytic base [active] 381666010080 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 381666010081 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 381666010082 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 381666010083 homodimer interface [polypeptide binding]; other site 381666010084 Walker A motif; other site 381666010085 ATP binding site [chemical binding]; other site 381666010086 hydroxycobalamin binding site [chemical binding]; other site 381666010087 Walker B motif; other site 381666010088 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 381666010089 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 381666010090 Walker A/P-loop; other site 381666010091 ATP binding site [chemical binding]; other site 381666010092 Q-loop/lid; other site 381666010093 ABC transporter signature motif; other site 381666010094 Walker B; other site 381666010095 D-loop; other site 381666010096 H-loop/switch region; other site 381666010097 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 381666010098 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 381666010099 ABC-ATPase subunit interface; other site 381666010100 dimer interface [polypeptide binding]; other site 381666010101 putative PBP binding regions; other site 381666010102 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 381666010103 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 381666010104 N-terminal plug; other site 381666010105 ligand-binding site [chemical binding]; other site 381666010106 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 381666010107 Cell division protein ZapA; Region: ZapA; pfam05164 381666010108 Uncharacterized conserved protein [Function unknown]; Region: COG2947 381666010109 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 381666010110 Protein of unknown function (DUF541); Region: SIMPL; cl01077 381666010111 Uncharacterized conserved protein [Function unknown]; Region: COG2968 381666010112 malonyl-CoA synthase; Validated; Region: PRK07514 381666010113 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 381666010114 acyl-activating enzyme (AAE) consensus motif; other site 381666010115 active site 381666010116 AMP binding site [chemical binding]; other site 381666010117 CoA binding site [chemical binding]; other site 381666010118 enoyl-CoA hydratase; Provisional; Region: PRK06127 381666010119 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 381666010120 substrate binding site [chemical binding]; other site 381666010121 oxyanion hole (OAH) forming residues; other site 381666010122 trimer interface [polypeptide binding]; other site 381666010123 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666010124 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 381666010125 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 381666010126 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666010127 DNA-binding site [nucleotide binding]; DNA binding site 381666010128 FCD domain; Region: FCD; pfam07729 381666010129 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 381666010130 Peptidase family M48; Region: Peptidase_M48; cl12018 381666010131 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 381666010132 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666010133 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 381666010134 putative dimerization interface [polypeptide binding]; other site 381666010135 putative substrate binding pocket [chemical binding]; other site 381666010136 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 381666010137 DNA polymerase III subunit chi; Validated; Region: PRK05728 381666010138 multifunctional aminopeptidase A; Provisional; Region: PRK00913 381666010139 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 381666010140 interface (dimer of trimers) [polypeptide binding]; other site 381666010141 Substrate-binding/catalytic site; other site 381666010142 Zn-binding sites [ion binding]; other site 381666010143 Predicted permeases [General function prediction only]; Region: COG0795 381666010144 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 381666010145 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 381666010146 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 381666010147 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 381666010148 putative active site [active] 381666010149 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 381666010150 active site 381666010151 SAM binding site [chemical binding]; other site 381666010152 homodimer interface [polypeptide binding]; other site 381666010153 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 381666010154 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 381666010155 CysD dimerization site [polypeptide binding]; other site 381666010156 G1 box; other site 381666010157 putative GEF interaction site [polypeptide binding]; other site 381666010158 GTP/Mg2+ binding site [chemical binding]; other site 381666010159 Switch I region; other site 381666010160 G2 box; other site 381666010161 G3 box; other site 381666010162 Switch II region; other site 381666010163 G4 box; other site 381666010164 G5 box; other site 381666010165 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 381666010166 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 381666010167 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 381666010168 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 381666010169 Active Sites [active] 381666010170 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 381666010171 Active Sites [active] 381666010172 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 381666010173 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 381666010174 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 381666010175 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 381666010176 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 381666010177 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 381666010178 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666010179 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 381666010180 substrate binding site [chemical binding]; other site 381666010181 dimerization interface [polypeptide binding]; other site 381666010182 Methyltransferase domain; Region: Methyltransf_23; pfam13489 381666010183 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 381666010184 S-adenosylmethionine binding site [chemical binding]; other site 381666010185 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 381666010186 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 381666010187 putative ligand binding site [chemical binding]; other site 381666010188 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 381666010189 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 381666010190 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 381666010191 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 381666010192 substrate binding pocket [chemical binding]; other site 381666010193 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 381666010194 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 381666010195 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 381666010196 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 381666010197 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 381666010198 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 381666010199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666010200 homodimer interface [polypeptide binding]; other site 381666010201 catalytic residue [active] 381666010202 Eukaryotic cytochrome b(561); Region: Cyt_b561; cl14616 381666010203 putative heme binding sites [chemical binding]; other site 381666010204 GntP family permease; Region: GntP_permease; pfam02447 381666010205 fructuronate transporter; Provisional; Region: PRK10034; cl15264 381666010206 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 381666010207 N-formylglutamate amidohydrolase; Region: FGase; cl01522 381666010208 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 381666010209 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 381666010210 active site 381666010211 imidazolonepropionase; Validated; Region: PRK09356 381666010212 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 381666010213 active site 381666010214 HutD; Region: HutD; pfam05962 381666010215 urocanate hydratase; Provisional; Region: PRK05414 381666010216 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 381666010217 active sites [active] 381666010218 tetramer interface [polypeptide binding]; other site 381666010219 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 381666010220 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666010221 DNA-binding site [nucleotide binding]; DNA binding site 381666010222 UTRA domain; Region: UTRA; pfam07702 381666010223 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 381666010224 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 381666010225 Walker A/P-loop; other site 381666010226 ATP binding site [chemical binding]; other site 381666010227 Q-loop/lid; other site 381666010228 ABC transporter signature motif; other site 381666010229 Walker B; other site 381666010230 D-loop; other site 381666010231 H-loop/switch region; other site 381666010232 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 381666010233 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 381666010234 dimer interface [polypeptide binding]; other site 381666010235 conserved gate region; other site 381666010236 putative PBP binding loops; other site 381666010237 ABC-ATPase subunit interface; other site 381666010238 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 381666010239 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 381666010240 substrate binding pocket [chemical binding]; other site 381666010241 membrane-bound complex binding site; other site 381666010242 hinge residues; other site 381666010243 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 381666010244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666010245 NAD(P) binding site [chemical binding]; other site 381666010246 active site 381666010247 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 381666010248 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 381666010249 catalytic loop [active] 381666010250 iron binding site [ion binding]; other site 381666010251 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 381666010252 FAD binding pocket [chemical binding]; other site 381666010253 FAD binding motif [chemical binding]; other site 381666010254 phosphate binding motif [ion binding]; other site 381666010255 beta-alpha-beta structure motif; other site 381666010256 NAD binding pocket [chemical binding]; other site 381666010257 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 381666010258 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 381666010259 inhibitor-cofactor binding pocket; inhibition site 381666010260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666010261 catalytic residue [active] 381666010262 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666010263 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 381666010264 Walker A/P-loop; other site 381666010265 ATP binding site [chemical binding]; other site 381666010266 Q-loop/lid; other site 381666010267 ABC transporter signature motif; other site 381666010268 Walker B; other site 381666010269 D-loop; other site 381666010270 H-loop/switch region; other site 381666010271 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666010272 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 381666010273 Walker A/P-loop; other site 381666010274 ATP binding site [chemical binding]; other site 381666010275 Q-loop/lid; other site 381666010276 ABC transporter signature motif; other site 381666010277 Walker B; other site 381666010278 D-loop; other site 381666010279 H-loop/switch region; other site 381666010280 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 381666010281 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 381666010282 TM-ABC transporter signature motif; other site 381666010283 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666010284 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 381666010285 TM-ABC transporter signature motif; other site 381666010286 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 381666010287 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 381666010288 dimerization interface [polypeptide binding]; other site 381666010289 ligand binding site [chemical binding]; other site 381666010290 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 381666010291 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 381666010292 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 381666010293 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 381666010294 hypothetical protein; Reviewed; Region: PRK00024 381666010295 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 381666010296 MPN+ (JAMM) motif; other site 381666010297 Zinc-binding site [ion binding]; other site 381666010298 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 381666010299 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 381666010300 L-aspartate oxidase; Provisional; Region: PRK09077 381666010301 L-aspartate oxidase; Provisional; Region: PRK06175 381666010302 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 381666010303 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 381666010304 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 381666010305 dimerization interface [polypeptide binding]; other site 381666010306 active site 381666010307 quinolinate synthetase; Provisional; Region: PRK09375 381666010308 Fatty acid desaturase; Region: FA_desaturase; pfam00487 381666010309 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 381666010310 Di-iron ligands [ion binding]; other site 381666010311 Transposase; Region: DDE_Tnp_ISL3; pfam01610 381666010312 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 381666010313 Mechanosensitive ion channel; Region: MS_channel; pfam00924 381666010314 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 381666010315 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 381666010316 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 381666010317 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 381666010318 active site 381666010319 cosubstrate binding site; other site 381666010320 substrate binding site [chemical binding]; other site 381666010321 catalytic site [active] 381666010322 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666010323 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 381666010324 active site 381666010325 phosphorylation site [posttranslational modification] 381666010326 intermolecular recognition site; other site 381666010327 dimerization interface [polypeptide binding]; other site 381666010328 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 381666010329 DNA binding residues [nucleotide binding] 381666010330 dimerization interface [polypeptide binding]; other site 381666010331 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666010332 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 381666010333 dimer interface [polypeptide binding]; other site 381666010334 phosphorylation site [posttranslational modification] 381666010335 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 381666010336 ATP binding site [chemical binding]; other site 381666010337 Mg2+ binding site [ion binding]; other site 381666010338 G-X-G motif; other site 381666010339 Response regulator receiver domain; Region: Response_reg; pfam00072 381666010340 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 381666010341 active site 381666010342 phosphorylation site [posttranslational modification] 381666010343 intermolecular recognition site; other site 381666010344 dimerization interface [polypeptide binding]; other site 381666010345 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 381666010346 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 381666010347 active site 381666010348 Riboflavin kinase; Region: Flavokinase; smart00904 381666010349 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 381666010350 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 381666010351 active site 381666010352 HIGH motif; other site 381666010353 nucleotide binding site [chemical binding]; other site 381666010354 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 381666010355 active site 381666010356 KMSKS motif; other site 381666010357 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 381666010358 tRNA binding surface [nucleotide binding]; other site 381666010359 anticodon binding site; other site 381666010360 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 381666010361 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 381666010362 lipoprotein signal peptidase; Provisional; Region: PRK14787 381666010363 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 381666010364 Flavoprotein; Region: Flavoprotein; pfam02441 381666010365 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 381666010366 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 381666010367 trimer interface [polypeptide binding]; other site 381666010368 active site 381666010369 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 381666010370 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666010371 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 381666010372 Clp amino terminal domain; Region: Clp_N; pfam02861 381666010373 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 381666010374 Walker A motif; other site 381666010375 ATP binding site [chemical binding]; other site 381666010376 Walker B motif; other site 381666010377 arginine finger; other site 381666010378 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 381666010379 Walker A motif; other site 381666010380 ATP binding site [chemical binding]; other site 381666010381 Walker B motif; other site 381666010382 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 381666010383 Uncharacterized conserved protein [Function unknown]; Region: COG2127 381666010384 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 381666010385 DNA-binding site [nucleotide binding]; DNA binding site 381666010386 RNA-binding motif; other site 381666010387 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_14; cd08355 381666010388 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666010389 isocitrate dehydrogenase; Validated; Region: PRK07362 381666010390 isocitrate dehydrogenase; Reviewed; Region: PRK07006 381666010391 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 381666010392 pseudouridine synthase; Region: TIGR00093 381666010393 active site 381666010394 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 381666010395 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 381666010396 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 381666010397 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 381666010398 FAD binding domain; Region: FAD_binding_4; pfam01565 381666010399 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 381666010400 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 381666010401 ornithine carbamoyltransferase; Provisional; Region: PRK00779 381666010402 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 381666010403 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 381666010404 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 381666010405 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 381666010406 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 381666010407 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 381666010408 Uncharacterized conserved protein [Function unknown]; Region: COG2912 381666010409 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 381666010410 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 381666010411 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 381666010412 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 381666010413 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 381666010414 ATP binding site [chemical binding]; other site 381666010415 Mg2+ binding site [ion binding]; other site 381666010416 G-X-G motif; other site 381666010417 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 381666010418 ATP binding site [chemical binding]; other site 381666010419 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 381666010420 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 381666010421 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 381666010422 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 381666010423 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666010424 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666010425 DNA-binding site [nucleotide binding]; DNA binding site 381666010426 FCD domain; Region: FCD; pfam07729 381666010427 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666010428 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 381666010429 Amidase; Region: Amidase; cl11426 381666010430 dihydropyrimidinase; Provisional; Region: PRK13404 381666010431 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 381666010432 tetramer interface [polypeptide binding]; other site 381666010433 active site 381666010434 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666010435 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 381666010436 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 381666010437 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 381666010438 dimerization interface [polypeptide binding]; other site 381666010439 putative ATP binding site [chemical binding]; other site 381666010440 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 381666010441 Domain of unknown function DUF20; Region: UPF0118; pfam01594 381666010442 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 381666010443 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 381666010444 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 381666010445 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 381666010446 poly(A) polymerase; Region: pcnB; TIGR01942 381666010447 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 381666010448 active site 381666010449 NTP binding site [chemical binding]; other site 381666010450 metal binding triad [ion binding]; metal-binding site 381666010451 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 381666010452 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 381666010453 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 381666010454 catalytic center binding site [active] 381666010455 ATP binding site [chemical binding]; other site 381666010456 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 381666010457 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 381666010458 Substrate-binding site [chemical binding]; other site 381666010459 Substrate specificity [chemical binding]; other site 381666010460 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 381666010461 oligomerization interface [polypeptide binding]; other site 381666010462 active site 381666010463 metal binding site [ion binding]; metal-binding site 381666010464 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 381666010465 dimer interface [polypeptide binding]; other site 381666010466 conserved gate region; other site 381666010467 putative PBP binding loops; other site 381666010468 ABC-ATPase subunit interface; other site 381666010469 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666010470 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 381666010471 Walker A/P-loop; other site 381666010472 ATP binding site [chemical binding]; other site 381666010473 Q-loop/lid; other site 381666010474 ABC transporter signature motif; other site 381666010475 Walker B; other site 381666010476 D-loop; other site 381666010477 H-loop/switch region; other site 381666010478 chorismate binding enzyme; Region: Chorismate_bind; cl10555 381666010479 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 381666010480 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 381666010481 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 381666010482 substrate-cofactor binding pocket; other site 381666010483 homodimer interface [polypeptide binding]; other site 381666010484 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666010485 catalytic residue [active] 381666010486 chaperone protein DnaJ; Provisional; Region: PRK10767 381666010487 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 381666010488 HSP70 interaction site [polypeptide binding]; other site 381666010489 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 381666010490 substrate binding site [polypeptide binding]; other site 381666010491 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 381666010492 Zn binding sites [ion binding]; other site 381666010493 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 381666010494 dimer interface [polypeptide binding]; other site 381666010495 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 381666010496 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 381666010497 nucleotide binding site [chemical binding]; other site 381666010498 NEF interaction site [polypeptide binding]; other site 381666010499 SBD interface [polypeptide binding]; other site 381666010500 ATP:cob(I)alamin adenosyltransferase; Region: PduO_Nterm; TIGR00636 381666010501 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666010502 FAD binding domain; Region: FAD_binding_4; pfam01565 381666010503 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666010504 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666010505 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 381666010506 dimerization interface [polypeptide binding]; other site 381666010507 substrate binding pocket [chemical binding]; other site 381666010508 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 381666010509 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666010510 Coenzyme A binding pocket [chemical binding]; other site 381666010511 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 381666010512 FAD binding domain; Region: FAD_binding_4; pfam01565 381666010513 Ion transport protein; Region: Ion_trans; pfam00520 381666010514 Ion channel; Region: Ion_trans_2; pfam07885 381666010515 Double zinc ribbon; Region: DZR; pfam12773 381666010516 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 381666010517 FAD binding domain; Region: FAD_binding_4; pfam01565 381666010518 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 381666010519 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 381666010520 Cysteine-rich domain; Region: CCG; pfam02754 381666010521 Cysteine-rich domain; Region: CCG; pfam02754 381666010522 LrgA family; Region: LrgA; pfam03788 381666010523 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 381666010524 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 381666010525 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666010526 Predicted transcriptional regulator [Transcription]; Region: COG2378 381666010527 HTH domain; Region: HTH_11; pfam08279 381666010528 WYL domain; Region: WYL; pfam13280 381666010529 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 381666010530 catalytic residues [active] 381666010531 dimer interface [polypeptide binding]; other site 381666010532 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 381666010533 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 381666010534 Walker A motif; other site 381666010535 ATP binding site [chemical binding]; other site 381666010536 Walker B motif; other site 381666010537 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 381666010538 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 381666010539 Walker A motif; other site 381666010540 ATP binding site [chemical binding]; other site 381666010541 Walker B motif; other site 381666010542 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 381666010543 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 381666010544 catalytic residue [active] 381666010545 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 381666010546 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 381666010547 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 381666010548 UbiA prenyltransferase family; Region: UbiA; pfam01040 381666010549 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 381666010550 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 381666010551 dimerization interface [polypeptide binding]; other site 381666010552 DPS ferroxidase diiron center [ion binding]; other site 381666010553 ion pore; other site 381666010554 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 381666010555 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 381666010556 tetramer interface [polypeptide binding]; other site 381666010557 heme binding pocket [chemical binding]; other site 381666010558 NADPH binding site [chemical binding]; other site 381666010559 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666010560 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666010561 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 381666010562 dimerization interface [polypeptide binding]; other site 381666010563 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 381666010564 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 381666010565 generic binding surface II; other site 381666010566 ssDNA binding site; other site 381666010567 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 381666010568 ATP binding site [chemical binding]; other site 381666010569 putative Mg++ binding site [ion binding]; other site 381666010570 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 381666010571 nucleotide binding region [chemical binding]; other site 381666010572 ATP-binding site [chemical binding]; other site 381666010573 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 381666010574 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 381666010575 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 381666010576 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 381666010577 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 381666010578 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 381666010579 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 381666010580 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 381666010581 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 381666010582 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 381666010583 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 381666010584 Protein export membrane protein; Region: SecD_SecF; pfam02355 381666010585 Response regulator receiver domain; Region: Response_reg; pfam00072 381666010586 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 381666010587 active site 381666010588 phosphorylation site [posttranslational modification] 381666010589 intermolecular recognition site; other site 381666010590 dimerization interface [polypeptide binding]; other site 381666010591 Response regulator receiver domain; Region: Response_reg; pfam00072 381666010592 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 381666010593 active site 381666010594 phosphorylation site [posttranslational modification] 381666010595 intermolecular recognition site; other site 381666010596 dimerization interface [polypeptide binding]; other site 381666010597 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 381666010598 dimer interface [polypeptide binding]; other site 381666010599 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666010600 phosphorylation site [posttranslational modification] 381666010601 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 381666010602 ATP binding site [chemical binding]; other site 381666010603 Mg2+ binding site [ion binding]; other site 381666010604 G-X-G motif; other site 381666010605 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666010606 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 381666010607 dimer interface [polypeptide binding]; other site 381666010608 phosphorylation site [posttranslational modification] 381666010609 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 381666010610 ATP binding site [chemical binding]; other site 381666010611 Mg2+ binding site [ion binding]; other site 381666010612 G-X-G motif; other site 381666010613 Methyltransferase domain; Region: Methyltransf_25; pfam13649 381666010614 Uncharacterized conserved protein [Function unknown]; Region: COG2353 381666010615 YceI-like domain; Region: YceI; smart00867 381666010616 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 381666010617 adenylosuccinate lyase; Provisional; Region: PRK09285 381666010618 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 381666010619 tetramer interface [polypeptide binding]; other site 381666010620 active site 381666010621 putative glutathione S-transferase; Provisional; Region: PRK10357 381666010622 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 381666010623 putative C-terminal domain interface [polypeptide binding]; other site 381666010624 putative GSH binding site (G-site) [chemical binding]; other site 381666010625 putative dimer interface [polypeptide binding]; other site 381666010626 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 381666010627 dimer interface [polypeptide binding]; other site 381666010628 N-terminal domain interface [polypeptide binding]; other site 381666010629 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 381666010630 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 381666010631 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 381666010632 nudix motif; other site 381666010633 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 381666010634 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 381666010635 ligand binding site [chemical binding]; other site 381666010636 homodimer interface [polypeptide binding]; other site 381666010637 NAD(P) binding site [chemical binding]; other site 381666010638 trimer interface B [polypeptide binding]; other site 381666010639 trimer interface A [polypeptide binding]; other site 381666010640 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 381666010641 tetramerization interface [polypeptide binding]; other site 381666010642 active site 381666010643 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 381666010644 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 381666010645 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 381666010646 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 381666010647 active site 381666010648 phosphorylation site [posttranslational modification] 381666010649 intermolecular recognition site; other site 381666010650 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 381666010651 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 381666010652 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 381666010653 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 381666010654 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 381666010655 putative catalytic residue [active] 381666010656 Predicted membrane protein [Function unknown]; Region: COG1981 381666010657 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 381666010658 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 381666010659 putative catalytic cysteine [active] 381666010660 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 381666010661 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 381666010662 Lipopolysaccharide-assembly; Region: LptE; cl01125 381666010663 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 381666010664 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 381666010665 HIGH motif; other site 381666010666 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 381666010667 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 381666010668 active site 381666010669 KMSKS motif; other site 381666010670 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 381666010671 tRNA binding surface [nucleotide binding]; other site 381666010672 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 381666010673 Transposase; Region: DDE_Tnp_ISL3; pfam01610 381666010674 dihydrodipicolinate reductase; Provisional; Region: PRK00048 381666010675 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 381666010676 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 381666010677 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 381666010678 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 381666010679 ferric uptake regulator; Provisional; Region: fur; PRK09462 381666010680 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 381666010681 metal binding site 2 [ion binding]; metal-binding site 381666010682 putative DNA binding helix; other site 381666010683 metal binding site 1 [ion binding]; metal-binding site 381666010684 dimer interface [polypeptide binding]; other site 381666010685 structural Zn2+ binding site [ion binding]; other site 381666010686 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666010687 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666010688 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 381666010689 putative substrate binding pocket [chemical binding]; other site 381666010690 putative dimerization interface [polypeptide binding]; other site 381666010691 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 381666010692 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 381666010693 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 381666010694 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 381666010695 transketolase; Reviewed; Region: PRK12753 381666010696 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 381666010697 TPP-binding site [chemical binding]; other site 381666010698 dimer interface [polypeptide binding]; other site 381666010699 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 381666010700 PYR/PP interface [polypeptide binding]; other site 381666010701 dimer interface [polypeptide binding]; other site 381666010702 TPP binding site [chemical binding]; other site 381666010703 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 381666010704 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 381666010705 putative dimer interface [polypeptide binding]; other site 381666010706 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666010707 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 381666010708 RNA methyltransferase, RsmE family; Region: TIGR00046 381666010709 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 381666010710 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 381666010711 putative RNAase interaction site [polypeptide binding]; other site 381666010712 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 381666010713 active site 381666010714 barstar interaction site; other site 381666010715 Malate dehydrogenase enzyme; Region: Malate_DH; pfam12434 381666010716 malic enzyme; Reviewed; Region: PRK12862 381666010717 Malic enzyme, N-terminal domain; Region: malic; pfam00390 381666010718 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 381666010719 putative NAD(P) binding site [chemical binding]; other site 381666010720 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 381666010721 thiamine monophosphate kinase; Provisional; Region: PRK05731 381666010722 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 381666010723 ATP binding site [chemical binding]; other site 381666010724 dimerization interface [polypeptide binding]; other site 381666010725 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 381666010726 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 381666010727 tetramer interfaces [polypeptide binding]; other site 381666010728 beta-alpha-beta structure motif; other site 381666010729 binuclear metal-binding site [ion binding]; other site 381666010730 Competence-damaged protein; Region: CinA; pfam02464 381666010731 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 381666010732 active site 381666010733 dimer interface [polypeptide binding]; other site 381666010734 EamA-like transporter family; Region: EamA; pfam00892 381666010735 EamA-like transporter family; Region: EamA; pfam00892 381666010736 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 381666010737 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 381666010738 Cl binding site [ion binding]; other site 381666010739 oligomer interface [polypeptide binding]; other site 381666010740 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 381666010741 Transglycosylase; Region: Transgly; cl17702 381666010742 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 381666010743 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 381666010744 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 381666010745 shikimate binding site; other site 381666010746 NAD(P) binding site [chemical binding]; other site 381666010747 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 381666010748 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 381666010749 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 381666010750 RNB domain; Region: RNB; pfam00773 381666010751 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 381666010752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666010753 NAD(P) binding site [chemical binding]; other site 381666010754 active site 381666010755 Chorismate lyase; Region: Chor_lyase; cl01230 381666010756 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 381666010757 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666010758 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 381666010759 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 381666010760 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 381666010761 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 381666010762 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 381666010763 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 381666010764 catalytic residues [active] 381666010765 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 381666010766 Dehydroquinase class II; Region: DHquinase_II; pfam01220 381666010767 trimer interface [polypeptide binding]; other site 381666010768 active site 381666010769 dimer interface [polypeptide binding]; other site 381666010770 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 381666010771 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 381666010772 carboxyltransferase (CT) interaction site; other site 381666010773 biotinylation site [posttranslational modification]; other site 381666010774 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 381666010775 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666010776 ATP-grasp domain; Region: ATP-grasp_4; cl17255 381666010777 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 381666010778 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 381666010779 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 381666010780 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 381666010781 S-adenosylmethionine binding site [chemical binding]; other site 381666010782 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 381666010783 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 381666010784 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 381666010785 dimer interface [polypeptide binding]; other site 381666010786 catalytic triad [active] 381666010787 peroxidatic and resolving cysteines [active] 381666010788 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 381666010789 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 381666010790 substrate binding site [chemical binding]; other site 381666010791 ATP binding site [chemical binding]; other site 381666010792 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 381666010793 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 381666010794 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 381666010795 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 381666010796 N-terminal plug; other site 381666010797 ligand-binding site [chemical binding]; other site 381666010798 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666010799 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666010800 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 381666010801 dimerization interface [polypeptide binding]; other site 381666010802 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 381666010803 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 381666010804 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 381666010805 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 381666010806 active site 381666010807 catalytic tetrad [active] 381666010808 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 381666010809 recombination associated protein; Reviewed; Region: rdgC; PRK00321 381666010810 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 381666010811 active site 381666010812 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666010813 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666010814 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666010815 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 381666010816 dimerization interface [polypeptide binding]; other site 381666010817 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666010818 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 381666010819 intersubunit interface [polypeptide binding]; other site 381666010820 active site 381666010821 Zn2+ binding site [ion binding]; other site 381666010822 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 381666010823 SnoaL-like domain; Region: SnoaL_2; pfam12680 381666010824 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 381666010825 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666010826 substrate binding pocket [chemical binding]; other site 381666010827 membrane-bound complex binding site; other site 381666010828 hinge residues; other site 381666010829 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 381666010830 enoyl-CoA hydratase; Provisional; Region: PRK06144 381666010831 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 381666010832 substrate binding site [chemical binding]; other site 381666010833 oxyanion hole (OAH) forming residues; other site 381666010834 trimer interface [polypeptide binding]; other site 381666010835 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666010836 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666010837 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666010838 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666010839 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666010840 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 381666010841 dimerization interface [polypeptide binding]; other site 381666010842 PAAR motif; Region: PAAR_motif; pfam05488 381666010843 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666010844 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 381666010845 substrate binding site [chemical binding]; other site 381666010846 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 381666010847 PAAR motif; Region: PAAR_motif; pfam05488 381666010848 Thioesterase domain; Region: Thioesterase; pfam00975 381666010849 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 381666010850 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666010851 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666010852 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 381666010853 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666010854 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 381666010855 Coenzyme A binding pocket [chemical binding]; other site 381666010856 Phosphotransferase enzyme family; Region: APH; pfam01636 381666010857 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 381666010858 substrate binding site [chemical binding]; other site 381666010859 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 381666010860 Ligand Binding Site [chemical binding]; other site 381666010861 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666010862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666010863 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 381666010864 dimerization interface [polypeptide binding]; other site 381666010865 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 381666010866 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 381666010867 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 381666010868 Walker A/P-loop; other site 381666010869 ATP binding site [chemical binding]; other site 381666010870 Q-loop/lid; other site 381666010871 ABC transporter signature motif; other site 381666010872 Walker B; other site 381666010873 D-loop; other site 381666010874 H-loop/switch region; other site 381666010875 PAAR motif; Region: PAAR_motif; pfam05488 381666010876 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 381666010877 putative metal binding site [ion binding]; other site 381666010878 Uncharacterized conserved protein [Function unknown]; Region: COG1432 381666010879 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 381666010880 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 381666010881 AAA ATPase domain; Region: AAA_16; pfam13191 381666010882 TPR repeat; Region: TPR_11; pfam13414 381666010883 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 381666010884 TPR motif; other site 381666010885 binding surface 381666010886 DGQHR domain; Region: DGQHR; TIGR03187 381666010887 DNA-sulfur modification-associated; Region: DndB; cl17621 381666010888 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 381666010889 dimer interface [polypeptide binding]; other site 381666010890 putative radical transfer pathway; other site 381666010891 diiron center [ion binding]; other site 381666010892 tyrosyl radical; other site 381666010893 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 381666010894 ATP cone domain; Region: ATP-cone; pfam03477 381666010895 Class I ribonucleotide reductase; Region: RNR_I; cd01679 381666010896 active site 381666010897 dimer interface [polypeptide binding]; other site 381666010898 catalytic residues [active] 381666010899 effector binding site; other site 381666010900 R2 peptide binding site; other site 381666010901 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 381666010902 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 381666010903 amidase catalytic site [active] 381666010904 Zn binding residues [ion binding]; other site 381666010905 substrate binding site [chemical binding]; other site 381666010906 Response regulator receiver domain; Region: Response_reg; pfam00072 381666010907 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 381666010908 active site 381666010909 phosphorylation site [posttranslational modification] 381666010910 intermolecular recognition site; other site 381666010911 dimerization interface [polypeptide binding]; other site 381666010912 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 381666010913 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 381666010914 Walker A motif; other site 381666010915 ATP binding site [chemical binding]; other site 381666010916 Walker B motif; other site 381666010917 arginine finger; other site 381666010918 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 381666010919 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666010920 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 381666010921 dimer interface [polypeptide binding]; other site 381666010922 phosphorylation site [posttranslational modification] 381666010923 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 381666010924 ATP binding site [chemical binding]; other site 381666010925 Mg2+ binding site [ion binding]; other site 381666010926 G-X-G motif; other site 381666010927 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 381666010928 signal recognition particle protein; Provisional; Region: PRK10867 381666010929 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 381666010930 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 381666010931 P loop; other site 381666010932 GTP binding site [chemical binding]; other site 381666010933 Signal peptide binding domain; Region: SRP_SPB; pfam02978 381666010934 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666010935 active site 381666010936 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 381666010937 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 381666010938 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 381666010939 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 381666010940 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666010941 catalytic residue [active] 381666010942 prolyl-tRNA synthetase; Provisional; Region: PRK09194 381666010943 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 381666010944 dimer interface [polypeptide binding]; other site 381666010945 motif 1; other site 381666010946 active site 381666010947 motif 2; other site 381666010948 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 381666010949 putative deacylase active site [active] 381666010950 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 381666010951 active site 381666010952 motif 3; other site 381666010953 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 381666010954 anticodon binding site; other site 381666010955 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 381666010956 putative active site [active] 381666010957 Ap4A binding site [chemical binding]; other site 381666010958 nudix motif; other site 381666010959 putative metal binding site [ion binding]; other site 381666010960 CNP1-like family; Region: CNP1; pfam08750 381666010961 gamma-glutamyl kinase; Provisional; Region: PRK05429 381666010962 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 381666010963 nucleotide binding site [chemical binding]; other site 381666010964 homotetrameric interface [polypeptide binding]; other site 381666010965 putative phosphate binding site [ion binding]; other site 381666010966 putative allosteric binding site; other site 381666010967 PUA domain; Region: PUA; pfam01472 381666010968 GTPase CgtA; Reviewed; Region: obgE; PRK12299 381666010969 GTP1/OBG; Region: GTP1_OBG; pfam01018 381666010970 Obg GTPase; Region: Obg; cd01898 381666010971 G1 box; other site 381666010972 GTP/Mg2+ binding site [chemical binding]; other site 381666010973 Switch I region; other site 381666010974 G2 box; other site 381666010975 G3 box; other site 381666010976 Switch II region; other site 381666010977 G4 box; other site 381666010978 G5 box; other site 381666010979 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 381666010980 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 381666010981 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 381666010982 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 381666010983 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 381666010984 substrate binding pocket [chemical binding]; other site 381666010985 chain length determination region; other site 381666010986 substrate-Mg2+ binding site; other site 381666010987 catalytic residues [active] 381666010988 aspartate-rich region 1; other site 381666010989 active site lid residues [active] 381666010990 aspartate-rich region 2; other site 381666010991 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 381666010992 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 381666010993 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 381666010994 Walker A motif; other site 381666010995 ATP binding site [chemical binding]; other site 381666010996 Walker B motif; other site 381666010997 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 381666010998 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 381666010999 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 381666011000 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 381666011001 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 381666011002 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 381666011003 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 381666011004 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 381666011005 CoA-binding site [chemical binding]; other site 381666011006 ATP-binding [chemical binding]; other site 381666011007 hypothetical protein; Provisional; Region: PRK05287 381666011008 Predicted membrane protein [Function unknown]; Region: COG1297 381666011009 putative oligopeptide transporter, OPT family; Region: TIGR00733 381666011010 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 381666011011 active site 381666011012 8-oxo-dGMP binding site [chemical binding]; other site 381666011013 nudix motif; other site 381666011014 metal binding site [ion binding]; metal-binding site 381666011015 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 381666011016 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 381666011017 Walker A motif; other site 381666011018 ATP binding site [chemical binding]; other site 381666011019 Walker B motif; other site 381666011020 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 381666011021 heterotetramer interface [polypeptide binding]; other site 381666011022 active site pocket [active] 381666011023 cleavage site 381666011024 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 381666011025 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 381666011026 SEC-C motif; Region: SEC-C; pfam02810 381666011027 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 381666011028 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 381666011029 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 381666011030 catalytic triad [active] 381666011031 dimer interface [polypeptide binding]; other site 381666011032 cell division protein FtsZ; Validated; Region: PRK09330 381666011033 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 381666011034 nucleotide binding site [chemical binding]; other site 381666011035 SulA interaction site; other site 381666011036 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 381666011037 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 381666011038 nucleotide binding site [chemical binding]; other site 381666011039 Cell division protein FtsA; Region: FtsA; pfam14450 381666011040 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 381666011041 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 381666011042 Cell division protein FtsQ; Region: FtsQ; pfam03799 381666011043 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 381666011044 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 381666011045 ATP-grasp domain; Region: ATP-grasp_4; cl17255 381666011046 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 381666011047 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 381666011048 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 381666011049 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 381666011050 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 381666011051 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 381666011052 active site 381666011053 homodimer interface [polypeptide binding]; other site 381666011054 cell division protein FtsW; Region: ftsW; TIGR02614 381666011055 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 381666011056 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 381666011057 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 381666011058 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 381666011059 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 381666011060 Mg++ binding site [ion binding]; other site 381666011061 putative catalytic motif [active] 381666011062 putative substrate binding site [chemical binding]; other site 381666011063 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 381666011064 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 381666011065 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 381666011066 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 381666011067 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 381666011068 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 381666011069 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 381666011070 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 381666011071 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 381666011072 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 381666011073 Cell division protein FtsL; Region: FtsL; cl11433 381666011074 MraW methylase family; Region: Methyltransf_5; cl17771 381666011075 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 381666011076 cell division protein MraZ; Reviewed; Region: PRK00326 381666011077 MraZ protein; Region: MraZ; pfam02381 381666011078 MraZ protein; Region: MraZ; pfam02381 381666011079 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 381666011080 diiron binding motif [ion binding]; other site 381666011081 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666011082 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666011083 trimer interface [polypeptide binding]; other site 381666011084 eyelet of channel; other site 381666011085 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666011086 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666011087 MarR family; Region: MarR; pfam01047 381666011088 murein hydrolase B; Provisional; Region: PRK10760; cl17906 381666011089 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 381666011090 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 381666011091 acyl-activating enzyme (AAE) consensus motif; other site 381666011092 putative AMP binding site [chemical binding]; other site 381666011093 putative active site [active] 381666011094 putative CoA binding site [chemical binding]; other site 381666011095 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666011096 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666011097 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666011098 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 381666011099 ATP-grasp domain; Region: ATP-grasp_4; cl17255 381666011100 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 381666011101 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 381666011102 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 381666011103 carboxyltransferase (CT) interaction site; other site 381666011104 biotinylation site [posttranslational modification]; other site 381666011105 Carboxyl transferase domain; Region: Carboxyl_trans; pfam01039 381666011106 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 381666011107 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 381666011108 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 381666011109 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 381666011110 putative [4Fe-4S] binding site [ion binding]; other site 381666011111 putative molybdopterin cofactor binding site [chemical binding]; other site 381666011112 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 381666011113 putative molybdopterin cofactor binding site; other site 381666011114 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 381666011115 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 381666011116 putative ligand binding site [chemical binding]; other site 381666011117 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 381666011118 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666011119 Walker A/P-loop; other site 381666011120 ATP binding site [chemical binding]; other site 381666011121 Q-loop/lid; other site 381666011122 ABC transporter signature motif; other site 381666011123 Walker B; other site 381666011124 D-loop; other site 381666011125 H-loop/switch region; other site 381666011126 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 381666011127 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 381666011128 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666011129 Walker A/P-loop; other site 381666011130 ATP binding site [chemical binding]; other site 381666011131 Q-loop/lid; other site 381666011132 ABC transporter signature motif; other site 381666011133 Walker B; other site 381666011134 D-loop; other site 381666011135 H-loop/switch region; other site 381666011136 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 381666011137 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 381666011138 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 381666011139 putative PBP binding loops; other site 381666011140 dimer interface [polypeptide binding]; other site 381666011141 ABC-ATPase subunit interface; other site 381666011142 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 381666011143 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 381666011144 dimer interface [polypeptide binding]; other site 381666011145 conserved gate region; other site 381666011146 putative PBP binding loops; other site 381666011147 ABC-ATPase subunit interface; other site 381666011148 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 381666011149 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 381666011150 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 381666011151 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 381666011152 metal binding site [ion binding]; metal-binding site 381666011153 putative dimer interface [polypeptide binding]; other site 381666011154 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 381666011155 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 381666011156 enoyl-CoA hydratase; Provisional; Region: PRK05862 381666011157 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 381666011158 substrate binding site [chemical binding]; other site 381666011159 oxyanion hole (OAH) forming residues; other site 381666011160 trimer interface [polypeptide binding]; other site 381666011161 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 381666011162 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 381666011163 Walker A/P-loop; other site 381666011164 ATP binding site [chemical binding]; other site 381666011165 Q-loop/lid; other site 381666011166 ABC transporter signature motif; other site 381666011167 Walker B; other site 381666011168 D-loop; other site 381666011169 H-loop/switch region; other site 381666011170 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666011171 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 381666011172 dimer interface [polypeptide binding]; other site 381666011173 conserved gate region; other site 381666011174 putative PBP binding loops; other site 381666011175 ABC-ATPase subunit interface; other site 381666011176 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666011177 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 381666011178 substrate binding pocket [chemical binding]; other site 381666011179 membrane-bound complex binding site; other site 381666011180 hinge residues; other site 381666011181 enoyl-CoA hydratase; Provisional; Region: PRK08140 381666011182 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 381666011183 substrate binding site [chemical binding]; other site 381666011184 oxyanion hole (OAH) forming residues; other site 381666011185 trimer interface [polypeptide binding]; other site 381666011186 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 381666011187 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 381666011188 CoenzymeA binding site [chemical binding]; other site 381666011189 subunit interaction site [polypeptide binding]; other site 381666011190 PHB binding site; other site 381666011191 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666011192 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 381666011193 acyl-activating enzyme (AAE) consensus motif; other site 381666011194 AMP binding site [chemical binding]; other site 381666011195 active site 381666011196 CoA binding site [chemical binding]; other site 381666011197 MltA specific insert domain; Region: MltA; smart00925 381666011198 3D domain; Region: 3D; pfam06725 381666011199 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 381666011200 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 381666011201 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 381666011202 substrate binding site [chemical binding]; other site 381666011203 hexamer interface [polypeptide binding]; other site 381666011204 metal binding site [ion binding]; metal-binding site 381666011205 phosphoglycolate phosphatase; Provisional; Region: PRK13222 381666011206 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 381666011207 motif II; other site 381666011208 anthranilate synthase component I; Provisional; Region: PRK13565 381666011209 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 381666011210 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 381666011211 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 381666011212 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 381666011213 glutamine binding [chemical binding]; other site 381666011214 catalytic triad [active] 381666011215 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 381666011216 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 381666011217 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 381666011218 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 381666011219 active site 381666011220 ribulose/triose binding site [chemical binding]; other site 381666011221 phosphate binding site [ion binding]; other site 381666011222 substrate (anthranilate) binding pocket [chemical binding]; other site 381666011223 product (indole) binding pocket [chemical binding]; other site 381666011224 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 381666011225 putative active site; other site 381666011226 putative triphosphate binding site [ion binding]; other site 381666011227 putative metal binding residues [ion binding]; other site 381666011228 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 381666011229 ligand binding site [chemical binding]; other site 381666011230 active site 381666011231 UGI interface [polypeptide binding]; other site 381666011232 catalytic site [active] 381666011233 acylphosphatase; Provisional; Region: PRK14430 381666011234 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 381666011235 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 381666011236 dimer interface [polypeptide binding]; other site 381666011237 conserved gate region; other site 381666011238 putative PBP binding loops; other site 381666011239 ABC-ATPase subunit interface; other site 381666011240 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 381666011241 dimer interface [polypeptide binding]; other site 381666011242 conserved gate region; other site 381666011243 putative PBP binding loops; other site 381666011244 ABC-ATPase subunit interface; other site 381666011245 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 381666011246 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 381666011247 Walker A/P-loop; other site 381666011248 ATP binding site [chemical binding]; other site 381666011249 Q-loop/lid; other site 381666011250 ABC transporter signature motif; other site 381666011251 Walker B; other site 381666011252 D-loop; other site 381666011253 H-loop/switch region; other site 381666011254 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 381666011255 Predicted membrane protein [Function unknown]; Region: COG1289 381666011256 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 381666011257 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 381666011258 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 381666011259 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 381666011260 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 381666011261 protein binding site [polypeptide binding]; other site 381666011262 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 381666011263 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 381666011264 NADP binding site [chemical binding]; other site 381666011265 dimer interface [polypeptide binding]; other site 381666011266 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 381666011267 dimerization domain [polypeptide binding]; other site 381666011268 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 381666011269 dimer interface [polypeptide binding]; other site 381666011270 catalytic residues [active] 381666011271 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 381666011272 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 381666011273 GTP-binding protein YchF; Reviewed; Region: PRK09601 381666011274 YchF GTPase; Region: YchF; cd01900 381666011275 G1 box; other site 381666011276 GTP/Mg2+ binding site [chemical binding]; other site 381666011277 Switch I region; other site 381666011278 G2 box; other site 381666011279 Switch II region; other site 381666011280 G3 box; other site 381666011281 G4 box; other site 381666011282 G5 box; other site 381666011283 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 381666011284 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 381666011285 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 381666011286 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 381666011287 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 381666011288 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 381666011289 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 381666011290 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 381666011291 tRNA; other site 381666011292 putative tRNA binding site [nucleotide binding]; other site 381666011293 putative NADP binding site [chemical binding]; other site 381666011294 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 381666011295 peptide chain release factor 1; Validated; Region: prfA; PRK00591 381666011296 This domain is found in peptide chain release factors; Region: PCRF; smart00937 381666011297 RF-1 domain; Region: RF-1; pfam00472 381666011298 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 381666011299 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 381666011300 S-adenosylmethionine binding site [chemical binding]; other site 381666011301 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 381666011302 putative GSH binding site [chemical binding]; other site 381666011303 catalytic residues [active] 381666011304 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 381666011305 Flavoprotein; Region: Flavoprotein; pfam02441 381666011306 aldehyde dehydrogenase family 7 member; Region: PLN02315 381666011307 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 381666011308 NAD(P) binding site [chemical binding]; other site 381666011309 catalytic residues [active] 381666011310 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 381666011311 TrkA-N domain; Region: TrkA_N; pfam02254 381666011312 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666011313 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 381666011314 AsnC family; Region: AsnC_trans_reg; pfam01037 381666011315 dihydrodipicolinate reductase; Provisional; Region: PRK00048 381666011316 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 381666011317 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 381666011318 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666011319 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 381666011320 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666011321 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 381666011322 acyl-activating enzyme (AAE) consensus motif; other site 381666011323 acyl-activating enzyme (AAE) consensus motif; other site 381666011324 putative AMP binding site [chemical binding]; other site 381666011325 putative active site [active] 381666011326 putative CoA binding site [chemical binding]; other site 381666011327 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666011328 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666011329 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666011330 putative effector binding pocket; other site 381666011331 dimerization interface [polypeptide binding]; other site 381666011332 Predicted transcriptional regulators [Transcription]; Region: COG1733 381666011333 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 381666011334 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 381666011335 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 381666011336 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666011337 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 381666011338 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666011339 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666011340 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 381666011341 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 381666011342 putative active site [active] 381666011343 putative metal binding site [ion binding]; other site 381666011344 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 381666011345 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 381666011346 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 381666011347 ABC transporter; Region: ABC_tran_2; pfam12848 381666011348 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 381666011349 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 381666011350 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 381666011351 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 381666011352 active site 381666011353 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; cd01292 381666011354 active site 381666011355 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 381666011356 xanthine permease; Region: pbuX; TIGR03173 381666011357 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666011358 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666011359 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 381666011360 putative dimerization interface [polypeptide binding]; other site 381666011361 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 381666011362 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 381666011363 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666011364 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 381666011365 catalytic loop [active] 381666011366 iron binding site [ion binding]; other site 381666011367 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666011368 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 381666011369 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 381666011370 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666011371 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 381666011372 Flavoprotein; Region: Flavoprotein; pfam02441 381666011373 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 381666011374 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 381666011375 P-loop, Walker A motif; other site 381666011376 Base recognition motif; other site 381666011377 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 381666011378 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 381666011379 active site 381666011380 catalytic site [active] 381666011381 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666011382 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666011383 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666011384 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 381666011385 putative dimerization interface [polypeptide binding]; other site 381666011386 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666011387 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666011388 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666011389 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666011390 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666011391 xanthine permease; Region: pbuX; TIGR03173 381666011392 amidohydrolase; Provisional; Region: PRK12393 381666011393 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 381666011394 active site 381666011395 putative substrate binding pocket [chemical binding]; other site 381666011396 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 381666011397 oligomeric interface; other site 381666011398 putative active site [active] 381666011399 homodimer interface [polypeptide binding]; other site 381666011400 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 381666011401 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 381666011402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666011403 amidase; Provisional; Region: PRK07487 381666011404 Amidase; Region: Amidase; cl11426 381666011405 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 381666011406 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666011407 DNA-binding site [nucleotide binding]; DNA binding site 381666011408 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 381666011409 2TM domain; Region: 2TM; pfam13239 381666011410 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 381666011411 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 381666011412 active site 381666011413 phosphorylation site [posttranslational modification] 381666011414 intermolecular recognition site; other site 381666011415 dimerization interface [polypeptide binding]; other site 381666011416 LytTr DNA-binding domain; Region: LytTR; smart00850 381666011417 2TM domain; Region: 2TM; pfam13239 381666011418 Histidine kinase; Region: His_kinase; pfam06580 381666011419 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 381666011420 ATP binding site [chemical binding]; other site 381666011421 Mg2+ binding site [ion binding]; other site 381666011422 G-X-G motif; other site 381666011423 Nuclease-related domain; Region: NERD; pfam08378 381666011424 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 381666011425 ATP binding site [chemical binding]; other site 381666011426 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 381666011427 putative Mg++ binding site [ion binding]; other site 381666011428 Family description; Region: UvrD_C_2; pfam13538 381666011429 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 381666011430 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 381666011431 stringent starvation protein A; Provisional; Region: sspA; PRK09481 381666011432 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 381666011433 C-terminal domain interface [polypeptide binding]; other site 381666011434 putative GSH binding site (G-site) [chemical binding]; other site 381666011435 dimer interface [polypeptide binding]; other site 381666011436 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 381666011437 dimer interface [polypeptide binding]; other site 381666011438 N-terminal domain interface [polypeptide binding]; other site 381666011439 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 381666011440 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 381666011441 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 381666011442 Qi binding site; other site 381666011443 intrachain domain interface; other site 381666011444 interchain domain interface [polypeptide binding]; other site 381666011445 heme bH binding site [chemical binding]; other site 381666011446 heme bL binding site [chemical binding]; other site 381666011447 Qo binding site; other site 381666011448 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 381666011449 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 381666011450 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 381666011451 [2Fe-2S] cluster binding site [ion binding]; other site 381666011452 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 381666011453 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 381666011454 Uncharacterized conserved protein [Function unknown]; Region: COG0327 381666011455 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 381666011456 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 381666011457 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 381666011458 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 381666011459 protein binding site [polypeptide binding]; other site 381666011460 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666011461 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666011462 trimer interface [polypeptide binding]; other site 381666011463 eyelet of channel; other site 381666011464 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 381666011465 sec-independent translocase; Provisional; Region: tatB; PRK01919 381666011466 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 381666011467 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 381666011468 nucleotide binding site/active site [active] 381666011469 HIT family signature motif; other site 381666011470 catalytic residue [active] 381666011471 Predicted membrane protein [Function unknown]; Region: COG3671 381666011472 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 381666011473 metal binding site [ion binding]; metal-binding site 381666011474 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 381666011475 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 381666011476 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 381666011477 substrate binding site [chemical binding]; other site 381666011478 glutamase interaction surface [polypeptide binding]; other site 381666011479 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 381666011480 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 381666011481 catalytic residues [active] 381666011482 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 381666011483 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 381666011484 putative active site [active] 381666011485 oxyanion strand; other site 381666011486 catalytic triad [active] 381666011487 MarC family integral membrane protein; Region: MarC; cl00919 381666011488 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 381666011489 putative active site pocket [active] 381666011490 4-fold oligomerization interface [polypeptide binding]; other site 381666011491 metal binding residues [ion binding]; metal-binding site 381666011492 3-fold/trimer interface [polypeptide binding]; other site 381666011493 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 381666011494 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 381666011495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666011496 homodimer interface [polypeptide binding]; other site 381666011497 catalytic residue [active] 381666011498 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 381666011499 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 381666011500 NAD binding site [chemical binding]; other site 381666011501 dimerization interface [polypeptide binding]; other site 381666011502 product binding site; other site 381666011503 substrate binding site [chemical binding]; other site 381666011504 zinc binding site [ion binding]; other site 381666011505 catalytic residues [active] 381666011506 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 381666011507 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 381666011508 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 381666011509 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 381666011510 hinge; other site 381666011511 active site 381666011512 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 381666011513 ABC-2 type transporter; Region: ABC2_membrane; cl17235 381666011514 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 381666011515 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 381666011516 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 381666011517 Walker A/P-loop; other site 381666011518 ATP binding site [chemical binding]; other site 381666011519 Q-loop/lid; other site 381666011520 ABC transporter signature motif; other site 381666011521 Walker B; other site 381666011522 D-loop; other site 381666011523 H-loop/switch region; other site 381666011524 STAS domain; Region: STAS_2; pfam13466 381666011525 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 381666011526 VacJ like lipoprotein; Region: VacJ; cl01073 381666011527 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 381666011528 mce related protein; Region: MCE; pfam02470 381666011529 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 381666011530 Permease; Region: Permease; pfam02405 381666011531 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 381666011532 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 381666011533 Walker A/P-loop; other site 381666011534 ATP binding site [chemical binding]; other site 381666011535 Q-loop/lid; other site 381666011536 ABC transporter signature motif; other site 381666011537 Walker B; other site 381666011538 D-loop; other site 381666011539 H-loop/switch region; other site 381666011540 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666011541 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 381666011542 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666011543 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666011544 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 381666011545 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 381666011546 active site 381666011547 dimer interface [polypeptide binding]; other site 381666011548 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 381666011549 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 381666011550 active site 381666011551 FMN binding site [chemical binding]; other site 381666011552 substrate binding site [chemical binding]; other site 381666011553 3Fe-4S cluster binding site [ion binding]; other site 381666011554 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 381666011555 domain interface; other site 381666011556 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 381666011557 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 381666011558 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 381666011559 Zn2+ binding site [ion binding]; other site 381666011560 Mg2+ binding site [ion binding]; other site 381666011561 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 381666011562 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 381666011563 active site 381666011564 dimer interface [polypeptide binding]; other site 381666011565 metal binding site [ion binding]; metal-binding site 381666011566 shikimate kinase; Reviewed; Region: aroK; PRK00131 381666011567 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 381666011568 ADP binding site [chemical binding]; other site 381666011569 magnesium binding site [ion binding]; other site 381666011570 putative shikimate binding site; other site 381666011571 AMIN domain; Region: AMIN; pfam11741 381666011572 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 381666011573 Secretin and TonB N terminus short domain; Region: STN; smart00965 381666011574 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 381666011575 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 381666011576 Pilus assembly protein, PilP; Region: PilP; pfam04351 381666011577 Pilus assembly protein, PilO; Region: PilO; cl01234 381666011578 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 381666011579 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 381666011580 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 381666011581 Cell division protein FtsA; Region: FtsA; cl17206 381666011582 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 381666011583 Transglycosylase; Region: Transgly; pfam00912 381666011584 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 381666011585 frataxin-like protein; Provisional; Region: cyaY; PRK00446 381666011586 putative iron binding site [ion binding]; other site 381666011587 diaminopimelate decarboxylase; Region: lysA; TIGR01048 381666011588 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 381666011589 active site 381666011590 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 381666011591 substrate binding site [chemical binding]; other site 381666011592 catalytic residues [active] 381666011593 dimer interface [polypeptide binding]; other site 381666011594 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 381666011595 TMAO/DMSO reductase; Reviewed; Region: PRK05363 381666011596 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 381666011597 Moco binding site; other site 381666011598 metal coordination site [ion binding]; other site 381666011599 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 381666011600 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 381666011601 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666011602 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 381666011603 DNA binding residues [nucleotide binding] 381666011604 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 381666011605 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 381666011606 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 381666011607 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 381666011608 ResB-like family; Region: ResB; pfam05140 381666011609 Cytochrome c; Region: Cytochrom_C; cl11414 381666011610 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 381666011611 Cytochrome c; Region: Cytochrom_C; cl11414 381666011612 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 381666011613 G1 box; other site 381666011614 GTP/Mg2+ binding site [chemical binding]; other site 381666011615 Switch I region; other site 381666011616 G2 box; other site 381666011617 G3 box; other site 381666011618 Switch II region; other site 381666011619 G4 box; other site 381666011620 G5 box; other site 381666011621 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 381666011622 dimer interface [polypeptide binding]; other site 381666011623 active site 381666011624 aspartate-rich active site metal binding site; other site 381666011625 allosteric magnesium binding site [ion binding]; other site 381666011626 Schiff base residues; other site 381666011627 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 381666011628 oligomer interface [polypeptide binding]; other site 381666011629 metal binding site [ion binding]; metal-binding site 381666011630 metal binding site [ion binding]; metal-binding site 381666011631 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 381666011632 putative Cl binding site [ion binding]; other site 381666011633 aspartate ring; other site 381666011634 hydrophobic gate; other site 381666011635 periplasmic entrance; other site 381666011636 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 381666011637 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 381666011638 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 381666011639 DsbD alpha interface [polypeptide binding]; other site 381666011640 catalytic residues [active] 381666011641 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 381666011642 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 381666011643 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 381666011644 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 381666011645 alphaNTD homodimer interface [polypeptide binding]; other site 381666011646 alphaNTD - beta interaction site [polypeptide binding]; other site 381666011647 alphaNTD - beta' interaction site [polypeptide binding]; other site 381666011648 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 381666011649 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 381666011650 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 381666011651 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 381666011652 RNA binding surface [nucleotide binding]; other site 381666011653 30S ribosomal protein S11; Validated; Region: PRK05309 381666011654 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 381666011655 30S ribosomal protein S13; Region: bact_S13; TIGR03631 381666011656 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 381666011657 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 381666011658 rRNA binding site [nucleotide binding]; other site 381666011659 predicted 30S ribosome binding site; other site 381666011660 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 381666011661 SecY translocase; Region: SecY; pfam00344 381666011662 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 381666011663 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 381666011664 23S rRNA binding site [nucleotide binding]; other site 381666011665 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 381666011666 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 381666011667 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 381666011668 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 381666011669 5S rRNA interface [nucleotide binding]; other site 381666011670 L27 interface [polypeptide binding]; other site 381666011671 23S rRNA interface [nucleotide binding]; other site 381666011672 L5 interface [polypeptide binding]; other site 381666011673 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 381666011674 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 381666011675 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 381666011676 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 381666011677 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 381666011678 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 381666011679 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 381666011680 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 381666011681 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 381666011682 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 381666011683 RNA binding site [nucleotide binding]; other site 381666011684 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 381666011685 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 381666011686 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 381666011687 23S rRNA interface [nucleotide binding]; other site 381666011688 putative translocon interaction site; other site 381666011689 signal recognition particle (SRP54) interaction site; other site 381666011690 L23 interface [polypeptide binding]; other site 381666011691 trigger factor interaction site; other site 381666011692 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 381666011693 23S rRNA interface [nucleotide binding]; other site 381666011694 5S rRNA interface [nucleotide binding]; other site 381666011695 putative antibiotic binding site [chemical binding]; other site 381666011696 L25 interface [polypeptide binding]; other site 381666011697 L27 interface [polypeptide binding]; other site 381666011698 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 381666011699 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 381666011700 G-X-X-G motif; other site 381666011701 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 381666011702 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 381666011703 putative translocon binding site; other site 381666011704 protein-rRNA interface [nucleotide binding]; other site 381666011705 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 381666011706 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 381666011707 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 381666011708 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 381666011709 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 381666011710 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 381666011711 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 381666011712 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 381666011713 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 381666011714 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 381666011715 short chain dehydrogenase; Provisional; Region: PRK08265 381666011716 classical (c) SDRs; Region: SDR_c; cd05233 381666011717 NAD(P) binding site [chemical binding]; other site 381666011718 active site 381666011719 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 381666011720 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 381666011721 SnoaL-like domain; Region: SnoaL_2; pfam12680 381666011722 Helix-turn-helix domain; Region: HTH_18; pfam12833 381666011723 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 381666011724 elongation factor Tu; Reviewed; Region: PRK00049 381666011725 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 381666011726 G1 box; other site 381666011727 GEF interaction site [polypeptide binding]; other site 381666011728 GTP/Mg2+ binding site [chemical binding]; other site 381666011729 Switch I region; other site 381666011730 G2 box; other site 381666011731 G3 box; other site 381666011732 Switch II region; other site 381666011733 G4 box; other site 381666011734 G5 box; other site 381666011735 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 381666011736 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 381666011737 Antibiotic Binding Site [chemical binding]; other site 381666011738 elongation factor G; Reviewed; Region: PRK00007 381666011739 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 381666011740 G1 box; other site 381666011741 putative GEF interaction site [polypeptide binding]; other site 381666011742 GTP/Mg2+ binding site [chemical binding]; other site 381666011743 Switch I region; other site 381666011744 G2 box; other site 381666011745 G3 box; other site 381666011746 Switch II region; other site 381666011747 G4 box; other site 381666011748 G5 box; other site 381666011749 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 381666011750 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 381666011751 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 381666011752 30S ribosomal protein S7; Validated; Region: PRK05302 381666011753 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 381666011754 S17 interaction site [polypeptide binding]; other site 381666011755 S8 interaction site; other site 381666011756 16S rRNA interaction site [nucleotide binding]; other site 381666011757 streptomycin interaction site [chemical binding]; other site 381666011758 23S rRNA interaction site [nucleotide binding]; other site 381666011759 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 381666011760 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 381666011761 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 381666011762 ATP binding site [chemical binding]; other site 381666011763 putative Mg++ binding site [ion binding]; other site 381666011764 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 381666011765 nucleotide binding region [chemical binding]; other site 381666011766 ATP-binding site [chemical binding]; other site 381666011767 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 381666011768 HRDC domain; Region: HRDC; pfam00570 381666011769 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 381666011770 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 381666011771 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 381666011772 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 381666011773 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 381666011774 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 381666011775 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 381666011776 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 381666011777 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 381666011778 DNA binding site [nucleotide binding] 381666011779 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 381666011780 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 381666011781 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 381666011782 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 381666011783 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 381666011784 RPB11 interaction site [polypeptide binding]; other site 381666011785 RPB12 interaction site [polypeptide binding]; other site 381666011786 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 381666011787 RPB3 interaction site [polypeptide binding]; other site 381666011788 RPB1 interaction site [polypeptide binding]; other site 381666011789 RPB11 interaction site [polypeptide binding]; other site 381666011790 RPB10 interaction site [polypeptide binding]; other site 381666011791 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 381666011792 core dimer interface [polypeptide binding]; other site 381666011793 peripheral dimer interface [polypeptide binding]; other site 381666011794 L10 interface [polypeptide binding]; other site 381666011795 L11 interface [polypeptide binding]; other site 381666011796 putative EF-Tu interaction site [polypeptide binding]; other site 381666011797 putative EF-G interaction site [polypeptide binding]; other site 381666011798 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 381666011799 23S rRNA interface [nucleotide binding]; other site 381666011800 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 381666011801 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 381666011802 mRNA/rRNA interface [nucleotide binding]; other site 381666011803 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 381666011804 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 381666011805 23S rRNA interface [nucleotide binding]; other site 381666011806 L7/L12 interface [polypeptide binding]; other site 381666011807 putative thiostrepton binding site; other site 381666011808 L25 interface [polypeptide binding]; other site 381666011809 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 381666011810 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 381666011811 putative homodimer interface [polypeptide binding]; other site 381666011812 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 381666011813 heterodimer interface [polypeptide binding]; other site 381666011814 homodimer interface [polypeptide binding]; other site 381666011815 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 381666011816 elongation factor Tu; Reviewed; Region: PRK00049 381666011817 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 381666011818 G1 box; other site 381666011819 GEF interaction site [polypeptide binding]; other site 381666011820 GTP/Mg2+ binding site [chemical binding]; other site 381666011821 Switch I region; other site 381666011822 G2 box; other site 381666011823 G3 box; other site 381666011824 Switch II region; other site 381666011825 G4 box; other site 381666011826 G5 box; other site 381666011827 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 381666011828 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 381666011829 Antibiotic Binding Site [chemical binding]; other site 381666011830 AMP-binding domain protein; Validated; Region: PRK08315 381666011831 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666011832 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 381666011833 acyl-activating enzyme (AAE) consensus motif; other site 381666011834 putative AMP binding site [chemical binding]; other site 381666011835 putative active site [active] 381666011836 putative CoA binding site [chemical binding]; other site 381666011837 Protein of unknown function, DUF488; Region: DUF488; cl01246 381666011838 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 381666011839 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 381666011840 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 381666011841 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 381666011842 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 381666011843 Ligand Binding Site [chemical binding]; other site 381666011844 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 381666011845 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 381666011846 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 381666011847 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 381666011848 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 381666011849 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 381666011850 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 381666011851 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 381666011852 FAD binding pocket [chemical binding]; other site 381666011853 FAD binding motif [chemical binding]; other site 381666011854 phosphate binding motif [ion binding]; other site 381666011855 beta-alpha-beta structure motif; other site 381666011856 NAD(p) ribose binding residues [chemical binding]; other site 381666011857 NAD binding pocket [chemical binding]; other site 381666011858 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 381666011859 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 381666011860 catalytic loop [active] 381666011861 iron binding site [ion binding]; other site 381666011862 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 381666011863 Protein of unknown function; Region: DUF3658; pfam12395 381666011864 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666011865 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666011866 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 381666011867 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 381666011868 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 381666011869 TrkA-N domain; Region: TrkA_N; pfam02254 381666011870 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 381666011871 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666011872 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 381666011873 putative DNA binding site [nucleotide binding]; other site 381666011874 putative Zn2+ binding site [ion binding]; other site 381666011875 AsnC family; Region: AsnC_trans_reg; pfam01037 381666011876 EF-hand domain pair; Region: EF_hand_5; pfam13499 381666011877 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 381666011878 Ca2+ binding site [ion binding]; other site 381666011879 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 381666011880 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 381666011881 heme-binding site [chemical binding]; other site 381666011882 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 381666011883 FAD binding pocket [chemical binding]; other site 381666011884 FAD binding motif [chemical binding]; other site 381666011885 phosphate binding motif [ion binding]; other site 381666011886 beta-alpha-beta structure motif; other site 381666011887 NAD binding pocket [chemical binding]; other site 381666011888 Heme binding pocket [chemical binding]; other site 381666011889 Predicted transcriptional regulator [Transcription]; Region: COG1959 381666011890 Transcriptional regulator; Region: Rrf2; cl17282 381666011891 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 381666011892 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 381666011893 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 381666011894 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 381666011895 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 381666011896 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 381666011897 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 381666011898 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 381666011899 GspL periplasmic domain; Region: GspL_C; cl14909 381666011900 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 381666011901 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 381666011902 type II secretion system protein D; Region: type_II_gspD; TIGR02517 381666011903 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 381666011904 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 381666011905 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 381666011906 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 381666011907 type II secretion system protein E; Region: type_II_gspE; TIGR02533 381666011908 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 381666011909 Walker A motif; other site 381666011910 ATP binding site [chemical binding]; other site 381666011911 Walker B motif; other site 381666011912 type II secretion system protein F; Region: GspF; TIGR02120 381666011913 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 381666011914 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 381666011915 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 381666011916 putative metal binding site [ion binding]; other site 381666011917 Uncharacterized conserved protein [Function unknown]; Region: COG1432 381666011918 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 381666011919 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 381666011920 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 381666011921 dimer interface [polypeptide binding]; other site 381666011922 PYR/PP interface [polypeptide binding]; other site 381666011923 TPP binding site [chemical binding]; other site 381666011924 substrate binding site [chemical binding]; other site 381666011925 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 381666011926 TPP-binding site; other site 381666011927 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 381666011928 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 381666011929 putative acetyltransferase; Provisional; Region: PRK03624 381666011930 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666011931 Coenzyme A binding pocket [chemical binding]; other site 381666011932 Uncharacterized conserved protein [Function unknown]; Region: COG3791 381666011933 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 381666011934 dimer interface [polypeptide binding]; other site 381666011935 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666011936 metal binding site [ion binding]; metal-binding site 381666011937 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666011938 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 381666011939 putative substrate translocation pore; other site 381666011940 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 381666011941 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 381666011942 putative active site [active] 381666011943 metal binding site [ion binding]; metal-binding site 381666011944 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 381666011945 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 381666011946 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 381666011947 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666011948 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 381666011949 active site 381666011950 metal binding site [ion binding]; metal-binding site 381666011951 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 381666011952 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 381666011953 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 381666011954 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 381666011955 catalytic residues [active] 381666011956 Cytochrome c [Energy production and conversion]; Region: COG3258 381666011957 Uncharacterized conserved protein [Function unknown]; Region: COG1416 381666011958 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 381666011959 Predicted secreted protein [Function unknown]; Region: COG5501 381666011960 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 381666011961 Cytochrome c; Region: Cytochrom_C; cl11414 381666011962 Cytochrome c; Region: Cytochrom_C; pfam00034 381666011963 Cytochrome c; Region: Cytochrom_C; cl11414 381666011964 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 381666011965 Moco binding site; other site 381666011966 metal coordination site [ion binding]; other site 381666011967 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 381666011968 dimerization interface [polypeptide binding]; other site 381666011969 putative DNA binding site [nucleotide binding]; other site 381666011970 putative Zn2+ binding site [ion binding]; other site 381666011971 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 381666011972 EamA-like transporter family; Region: EamA; pfam00892 381666011973 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 381666011974 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666011975 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 381666011976 Cytochrome c; Region: Cytochrom_C; cl11414 381666011977 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 381666011978 BON domain; Region: BON; pfam04972 381666011979 BON domain; Region: BON; pfam04972 381666011980 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 381666011981 dimer interface [polypeptide binding]; other site 381666011982 active site 381666011983 hypothetical protein; Provisional; Region: PRK14673 381666011984 Predicted methyltransferases [General function prediction only]; Region: COG0313 381666011985 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 381666011986 putative SAM binding site [chemical binding]; other site 381666011987 putative homodimer interface [polypeptide binding]; other site 381666011988 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 381666011989 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 381666011990 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 381666011991 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 381666011992 ArsC family; Region: ArsC; pfam03960 381666011993 catalytic residues [active] 381666011994 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 381666011995 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 381666011996 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 381666011997 putative metal binding site [ion binding]; other site 381666011998 allantoate amidohydrolase; Reviewed; Region: PRK12890 381666011999 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 381666012000 active site 381666012001 metal binding site [ion binding]; metal-binding site 381666012002 dimer interface [polypeptide binding]; other site 381666012003 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 381666012004 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 381666012005 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666012006 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666012007 DNA-binding site [nucleotide binding]; DNA binding site 381666012008 FCD domain; Region: FCD; pfam07729 381666012009 short chain dehydrogenase; Provisional; Region: PRK07576 381666012010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666012011 NAD(P) binding site [chemical binding]; other site 381666012012 active site 381666012013 enoyl-CoA hydratase; Provisional; Region: PRK08140 381666012014 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 381666012015 substrate binding site [chemical binding]; other site 381666012016 oxyanion hole (OAH) forming residues; other site 381666012017 trimer interface [polypeptide binding]; other site 381666012018 enoyl-CoA hydratase; Provisional; Region: PRK07509 381666012019 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 381666012020 substrate binding site [chemical binding]; other site 381666012021 oxyanion hole (OAH) forming residues; other site 381666012022 trimer interface [polypeptide binding]; other site 381666012023 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 381666012024 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 381666012025 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666012026 transcriptional activator TtdR; Provisional; Region: PRK09801 381666012027 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666012028 putative effector binding pocket; other site 381666012029 dimerization interface [polypeptide binding]; other site 381666012030 glyoxylate carboligase; Provisional; Region: PRK11269 381666012031 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666012032 PYR/PP interface [polypeptide binding]; other site 381666012033 dimer interface [polypeptide binding]; other site 381666012034 TPP binding site [chemical binding]; other site 381666012035 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 381666012036 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 381666012037 TPP-binding site [chemical binding]; other site 381666012038 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 381666012039 tartronate semialdehyde reductase; Provisional; Region: PRK15059 381666012040 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 381666012041 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 381666012042 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 381666012043 MOFRL family; Region: MOFRL; pfam05161 381666012044 pyruvate kinase; Provisional; Region: PRK06247 381666012045 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 381666012046 domain interfaces; other site 381666012047 active site 381666012048 Predicted metalloprotease [General function prediction only]; Region: COG2321 381666012049 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 381666012050 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 381666012051 Protein export membrane protein; Region: SecD_SecF; cl14618 381666012052 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 381666012053 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 381666012054 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 381666012055 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 381666012056 DNA binding residues [nucleotide binding] 381666012057 dimer interface [polypeptide binding]; other site 381666012058 putative metal binding site [ion binding]; other site 381666012059 heat shock protein HtpX; Provisional; Region: PRK05457 381666012060 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 381666012061 hypothetical protein; Provisional; Region: PRK09256 381666012062 MltA-interacting protein MipA; Region: MipA; cl01504 381666012063 Cytochrome c; Region: Cytochrom_C; cl11414 381666012064 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 381666012065 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 381666012066 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 381666012067 FeS/SAM binding site; other site 381666012068 HemN C-terminal domain; Region: HemN_C; pfam06969 381666012069 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 381666012070 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 381666012071 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 381666012072 Part of AAA domain; Region: AAA_19; pfam13245 381666012073 Family description; Region: UvrD_C_2; pfam13538 381666012074 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 381666012075 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 381666012076 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 381666012077 lipoyl attachment site [posttranslational modification]; other site 381666012078 glycine dehydrogenase; Provisional; Region: PRK05367 381666012079 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 381666012080 tetramer interface [polypeptide binding]; other site 381666012081 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666012082 catalytic residue [active] 381666012083 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 381666012084 tetramer interface [polypeptide binding]; other site 381666012085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666012086 catalytic residue [active] 381666012087 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 381666012088 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 381666012089 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 381666012090 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666012091 OsmC-like protein; Region: OsmC; cl00767 381666012092 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 381666012093 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 381666012094 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 381666012095 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 381666012096 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 381666012097 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 381666012098 binding surface 381666012099 TPR motif; other site 381666012100 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 381666012101 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 381666012102 dimerization interface [polypeptide binding]; other site 381666012103 ligand binding site [chemical binding]; other site 381666012104 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 381666012105 Predicted transcriptional regulator [Transcription]; Region: COG3905 381666012106 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 381666012107 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 381666012108 Glutamate binding site [chemical binding]; other site 381666012109 NAD binding site [chemical binding]; other site 381666012110 catalytic residues [active] 381666012111 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 381666012112 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 381666012113 ATP binding site [chemical binding]; other site 381666012114 putative Mg++ binding site [ion binding]; other site 381666012115 helicase superfamily c-terminal domain; Region: HELICc; smart00490 381666012116 ATP-binding site [chemical binding]; other site 381666012117 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 381666012118 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 381666012119 substrate binding site [chemical binding]; other site 381666012120 active site 381666012121 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 381666012122 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 381666012123 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 381666012124 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 381666012125 gamma subunit interface [polypeptide binding]; other site 381666012126 epsilon subunit interface [polypeptide binding]; other site 381666012127 LBP interface [polypeptide binding]; other site 381666012128 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 381666012129 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 381666012130 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 381666012131 alpha subunit interaction interface [polypeptide binding]; other site 381666012132 Walker A motif; other site 381666012133 ATP binding site [chemical binding]; other site 381666012134 Walker B motif; other site 381666012135 inhibitor binding site; inhibition site 381666012136 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 381666012137 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 381666012138 core domain interface [polypeptide binding]; other site 381666012139 delta subunit interface [polypeptide binding]; other site 381666012140 epsilon subunit interface [polypeptide binding]; other site 381666012141 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 381666012142 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 381666012143 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 381666012144 beta subunit interaction interface [polypeptide binding]; other site 381666012145 Walker A motif; other site 381666012146 ATP binding site [chemical binding]; other site 381666012147 Walker B motif; other site 381666012148 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 381666012149 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 381666012150 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 381666012151 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 381666012152 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 381666012153 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 381666012154 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 381666012155 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 381666012156 ATP synthase I chain; Region: ATP_synt_I; cl09170 381666012157 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 381666012158 ParB-like nuclease domain; Region: ParB; smart00470 381666012159 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 381666012160 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 381666012161 P-loop; other site 381666012162 Magnesium ion binding site [ion binding]; other site 381666012163 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 381666012164 Magnesium ion binding site [ion binding]; other site 381666012165 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 381666012166 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 381666012167 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 381666012168 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 381666012169 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 381666012170 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 381666012171 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666012172 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666012173 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666012174 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 381666012175 dimerization interface [polypeptide binding]; other site 381666012176 substrate binding pocket [chemical binding]; other site 381666012177 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666012178 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 381666012179 Walker A/P-loop; other site 381666012180 ATP binding site [chemical binding]; other site 381666012181 Q-loop/lid; other site 381666012182 ABC transporter signature motif; other site 381666012183 Walker B; other site 381666012184 D-loop; other site 381666012185 H-loop/switch region; other site 381666012186 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 381666012187 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 381666012188 TM-ABC transporter signature motif; other site 381666012189 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666012190 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 381666012191 Walker A/P-loop; other site 381666012192 ATP binding site [chemical binding]; other site 381666012193 Q-loop/lid; other site 381666012194 ABC transporter signature motif; other site 381666012195 Walker B; other site 381666012196 D-loop; other site 381666012197 H-loop/switch region; other site 381666012198 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 381666012199 TM-ABC transporter signature motif; other site 381666012200 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 381666012201 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 381666012202 putative ligand binding site [chemical binding]; other site 381666012203 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 381666012204 hypothetical protein; Provisional; Region: PRK10621 381666012205 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 381666012206 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 381666012207 TM-ABC transporter signature motif; other site 381666012208 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666012209 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 381666012210 TM-ABC transporter signature motif; other site 381666012211 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666012212 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 381666012213 putative ligand binding site [chemical binding]; other site 381666012214 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666012215 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 381666012216 Walker A/P-loop; other site 381666012217 ATP binding site [chemical binding]; other site 381666012218 Q-loop/lid; other site 381666012219 ABC transporter signature motif; other site 381666012220 Walker B; other site 381666012221 D-loop; other site 381666012222 H-loop/switch region; other site 381666012223 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666012224 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 381666012225 Walker A/P-loop; other site 381666012226 ATP binding site [chemical binding]; other site 381666012227 Q-loop/lid; other site 381666012228 ABC transporter signature motif; other site 381666012229 Walker B; other site 381666012230 D-loop; other site 381666012231 H-loop/switch region; other site 381666012232 choline dehydrogenase; Validated; Region: PRK02106 381666012233 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 381666012234 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 381666012235 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 381666012236 tetrameric interface [polypeptide binding]; other site 381666012237 NAD binding site [chemical binding]; other site 381666012238 catalytic residues [active] 381666012239 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666012240 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666012241 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 381666012242 dimerization interface [polypeptide binding]; other site 381666012243 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 381666012244 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 381666012245 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 381666012246 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 381666012247 DNA binding residues [nucleotide binding] 381666012248 dimer interface [polypeptide binding]; other site 381666012249 copper binding site [ion binding]; other site 381666012250 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 381666012251 metal-binding site [ion binding] 381666012252 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 381666012253 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 381666012254 metal-binding site [ion binding] 381666012255 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 381666012256 Soluble P-type ATPase [General function prediction only]; Region: COG4087 381666012257 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 381666012258 metal-binding site [ion binding] 381666012259 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 381666012260 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 381666012261 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 381666012262 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666012263 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666012264 ornithine cyclodeaminase; Validated; Region: PRK07340 381666012265 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 381666012266 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 381666012267 Transglycosylase; Region: Transgly; pfam00912 381666012268 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 381666012269 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 381666012270 Predicted membrane protein [Function unknown]; Region: COG3714 381666012271 Bacterial Ig-like domain; Region: Big_5; pfam13205 381666012272 MG2 domain; Region: A2M_N; pfam01835 381666012273 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 381666012274 Alpha-2-macroglobulin family; Region: A2M; pfam00207 381666012275 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 381666012276 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666012277 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 381666012278 putative DNA binding site [nucleotide binding]; other site 381666012279 putative Zn2+ binding site [ion binding]; other site 381666012280 AsnC family; Region: AsnC_trans_reg; pfam01037 381666012281 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 381666012282 cofactor binding site; other site 381666012283 metal binding site [ion binding]; metal-binding site 381666012284 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 381666012285 aromatic arch; other site 381666012286 DCoH dimer interaction site [polypeptide binding]; other site 381666012287 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 381666012288 DCoH tetramer interaction site [polypeptide binding]; other site 381666012289 substrate binding site [chemical binding]; other site 381666012290 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666012291 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 381666012292 active site 381666012293 phosphorylation site [posttranslational modification] 381666012294 intermolecular recognition site; other site 381666012295 dimerization interface [polypeptide binding]; other site 381666012296 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 381666012297 DNA binding site [nucleotide binding] 381666012298 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 381666012299 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666012300 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 381666012301 dimer interface [polypeptide binding]; other site 381666012302 phosphorylation site [posttranslational modification] 381666012303 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 381666012304 ATP binding site [chemical binding]; other site 381666012305 Mg2+ binding site [ion binding]; other site 381666012306 G-X-G motif; other site 381666012307 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 381666012308 Proteins containing SET domain [General function prediction only]; Region: COG2940 381666012309 Cysteine-rich motif following a subset of SET domains; Region: PostSET; smart00508 381666012310 L-fuculokinase; Provisional; Region: PRK10331 381666012311 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 381666012312 IHF dimer interface [polypeptide binding]; other site 381666012313 IHF - DNA interface [nucleotide binding]; other site 381666012314 Uncharacterized protein conserved in bacteria (DUF2272); Region: DUF2272; pfam10030 381666012315 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 381666012316 active site 381666012317 DNA polymerase IV; Validated; Region: PRK02406 381666012318 DNA binding site [nucleotide binding] 381666012319 Predicted permeases [General function prediction only]; Region: RarD; COG2962 381666012320 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 381666012321 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 381666012322 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 381666012323 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 381666012324 amphipathic channel; other site 381666012325 Asn-Pro-Ala signature motifs; other site 381666012326 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 381666012327 Response regulator receiver domain; Region: Response_reg; pfam00072 381666012328 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 381666012329 active site 381666012330 phosphorylation site [posttranslational modification] 381666012331 intermolecular recognition site; other site 381666012332 dimerization interface [polypeptide binding]; other site 381666012333 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 381666012334 dimerization interface [polypeptide binding]; other site 381666012335 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 381666012336 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 381666012337 putative active site [active] 381666012338 heme pocket [chemical binding]; other site 381666012339 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 381666012340 dimer interface [polypeptide binding]; other site 381666012341 phosphorylation site [posttranslational modification] 381666012342 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 381666012343 ATP binding site [chemical binding]; other site 381666012344 Mg2+ binding site [ion binding]; other site 381666012345 G-X-G motif; other site 381666012346 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 381666012347 16S rRNA methyltransferase B; Provisional; Region: PRK10901 381666012348 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 381666012349 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 381666012350 S-adenosylmethionine binding site [chemical binding]; other site 381666012351 M48 family peptidase; Provisional; Region: PRK03001 381666012352 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 381666012353 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 381666012354 putative active site [active] 381666012355 substrate binding site [chemical binding]; other site 381666012356 putative cosubstrate binding site; other site 381666012357 catalytic site [active] 381666012358 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 381666012359 substrate binding site [chemical binding]; other site 381666012360 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 381666012361 active site 381666012362 catalytic residues [active] 381666012363 metal binding site [ion binding]; metal-binding site 381666012364 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 381666012365 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 381666012366 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 381666012367 DNA protecting protein DprA; Region: dprA; TIGR00732 381666012368 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 381666012369 catalytic residues [active] 381666012370 DNA topoisomerase III; Validated; Region: PRK08173 381666012371 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 381666012372 active site 381666012373 putative interdomain interaction site [polypeptide binding]; other site 381666012374 putative metal-binding site [ion binding]; other site 381666012375 putative nucleotide binding site [chemical binding]; other site 381666012376 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 381666012377 domain I; other site 381666012378 DNA binding groove [nucleotide binding] 381666012379 phosphate binding site [ion binding]; other site 381666012380 domain II; other site 381666012381 domain III; other site 381666012382 nucleotide binding site [chemical binding]; other site 381666012383 catalytic site [active] 381666012384 domain IV; other site 381666012385 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 381666012386 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 381666012387 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666012388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666012389 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666012390 putative effector binding pocket; other site 381666012391 dimerization interface [polypeptide binding]; other site 381666012392 Protein of unknown function (DUF466); Region: DUF466; pfam04328 381666012393 carbon starvation protein A; Provisional; Region: PRK15015 381666012394 Carbon starvation protein CstA; Region: CstA; pfam02554 381666012395 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 381666012396 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 381666012397 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 381666012398 Histidine kinase; Region: HisKA_3; pfam07730 381666012399 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 381666012400 ATP binding site [chemical binding]; other site 381666012401 Mg2+ binding site [ion binding]; other site 381666012402 G-X-G motif; other site 381666012403 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666012404 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 381666012405 active site 381666012406 phosphorylation site [posttranslational modification] 381666012407 intermolecular recognition site; other site 381666012408 dimerization interface [polypeptide binding]; other site 381666012409 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 381666012410 DNA binding residues [nucleotide binding] 381666012411 dimerization interface [polypeptide binding]; other site 381666012412 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 381666012413 active site 381666012414 substrate-binding site [chemical binding]; other site 381666012415 metal-binding site [ion binding] 381666012416 GTP binding site [chemical binding]; other site 381666012417 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 381666012418 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 381666012419 dimerization interface [polypeptide binding]; other site 381666012420 NAD binding site [chemical binding]; other site 381666012421 ligand binding site [chemical binding]; other site 381666012422 catalytic site [active] 381666012423 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 381666012424 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 381666012425 putative substrate translocation pore; other site 381666012426 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 381666012427 MOSC domain; Region: MOSC; pfam03473 381666012428 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666012429 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666012430 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666012431 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 381666012432 Protein of unknown function, DUF399; Region: DUF399; pfam04187 381666012433 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012434 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 381666012435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 381666012436 Putative ammonia monooxygenase; Region: AmoA; pfam05145 381666012437 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 381666012438 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 381666012439 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 381666012440 CoenzymeA binding site [chemical binding]; other site 381666012441 subunit interaction site [polypeptide binding]; other site 381666012442 PHB binding site; other site 381666012443 Patatin-like phospholipase; Region: Patatin; pfam01734 381666012444 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 381666012445 glutathione reductase; Validated; Region: PRK06116 381666012446 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666012447 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666012448 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 381666012449 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 381666012450 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 381666012451 dimer interface [polypeptide binding]; other site 381666012452 phosphorylation site [posttranslational modification] 381666012453 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 381666012454 ATP binding site [chemical binding]; other site 381666012455 Mg2+ binding site [ion binding]; other site 381666012456 G-X-G motif; other site 381666012457 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 381666012458 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 381666012459 active site 381666012460 phosphorylation site [posttranslational modification] 381666012461 intermolecular recognition site; other site 381666012462 dimerization interface [polypeptide binding]; other site 381666012463 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 381666012464 DNA binding site [nucleotide binding] 381666012465 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 381666012466 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 381666012467 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 381666012468 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666012469 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 381666012470 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666012471 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666012472 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666012473 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 381666012474 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 381666012475 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 381666012476 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 381666012477 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 381666012478 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 381666012479 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666012480 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666012481 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 381666012482 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 381666012483 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666012484 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 381666012485 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666012486 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 381666012487 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 381666012488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666012489 short chain dehydrogenase; Provisional; Region: PRK06924 381666012490 NAD(P) binding site [chemical binding]; other site 381666012491 active site 381666012492 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666012493 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 381666012494 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 381666012495 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 381666012496 membrane protein insertase; Provisional; Region: PRK01318 381666012497 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 381666012498 hypothetical protein; Validated; Region: PRK00041 381666012499 Ribonuclease P; Region: Ribonuclease_P; cl00457 381666012500 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 381666012501 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 381666012502 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 381666012503 DNA-binding site [nucleotide binding]; DNA binding site 381666012504 RNA-binding motif; other site 381666012505 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 381666012506 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 381666012507 P-loop; other site 381666012508 Magnesium ion binding site [ion binding]; other site 381666012509 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 381666012510 ParB-like nuclease domain; Region: ParB; smart00470 381666012511 Phage integrase protein; Region: DUF3701; pfam12482 381666012512 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666012513 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 381666012514 DNA binding residues [nucleotide binding] 381666012515 dimerization interface [polypeptide binding]; other site 381666012516 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 381666012517 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666012518 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 381666012519 ligand binding site [chemical binding]; other site 381666012520 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 381666012521 non-specific DNA interactions [nucleotide binding]; other site 381666012522 DNA binding site [nucleotide binding] 381666012523 sequence specific DNA binding site [nucleotide binding]; other site 381666012524 putative cAMP binding site [chemical binding]; other site 381666012525 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 381666012526 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 381666012527 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 381666012528 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 381666012529 acyl carrier protein; Provisional; Region: PRK07081 381666012530 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666012531 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666012532 active site 381666012533 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 381666012534 dimer interface [polypeptide binding]; other site 381666012535 motif 1; other site 381666012536 active site 381666012537 motif 2; other site 381666012538 motif 3; other site 381666012539 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 381666012540 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 381666012541 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 381666012542 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 381666012543 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 381666012544 Bacterial sugar transferase; Region: Bac_transf; pfam02397 381666012545 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 381666012546 active site 381666012547 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 381666012548 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 381666012549 putative trimer interface [polypeptide binding]; other site 381666012550 putative CoA binding site [chemical binding]; other site 381666012551 Chain length determinant protein; Region: Wzz; cl15801 381666012552 tyrosine kinase; Provisional; Region: PRK11519 381666012553 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 381666012554 Low molecular weight phosphatase family; Region: LMWPc; cd00115 381666012555 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 381666012556 active site 381666012557 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 381666012558 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 381666012559 SLBB domain; Region: SLBB; pfam10531 381666012560 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666012561 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 381666012562 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 381666012563 putative active site [active] 381666012564 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 381666012565 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666012566 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 381666012567 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 381666012568 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 381666012569 inhibitor-cofactor binding pocket; inhibition site 381666012570 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666012571 catalytic residue [active] 381666012572 putative trimer interface [polypeptide binding]; other site 381666012573 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 381666012574 putative CoA binding site [chemical binding]; other site 381666012575 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 381666012576 putative trimer interface [polypeptide binding]; other site 381666012577 putative active site [active] 381666012578 putative substrate binding site [chemical binding]; other site 381666012579 putative CoA binding site [chemical binding]; other site 381666012580 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 381666012581 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 381666012582 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 381666012583 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 381666012584 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 381666012585 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 381666012586 tyrosine kinase; Provisional; Region: PRK11519 381666012587 Chain length determinant protein; Region: Wzz; pfam02706 381666012588 Chain length determinant protein; Region: Wzz; cl15801 381666012589 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 381666012590 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 381666012591 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 381666012592 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 381666012593 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 381666012594 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 381666012595 NAD(P) binding site [chemical binding]; other site 381666012596 homodimer interface [polypeptide binding]; other site 381666012597 substrate binding site [chemical binding]; other site 381666012598 active site 381666012599 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 381666012600 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 381666012601 inhibitor-cofactor binding pocket; inhibition site 381666012602 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666012603 catalytic residue [active] 381666012604 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 381666012605 active site 381666012606 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 381666012607 active site 381666012608 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666012609 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666012610 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 381666012611 DNA binding residues [nucleotide binding] 381666012612 dimerization interface [polypeptide binding]; other site 381666012613 cyanate hydratase; Validated; Region: PRK02866 381666012614 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 381666012615 oligomer interface [polypeptide binding]; other site 381666012616 active site 381666012617 putative cyanate transporter; Provisional; Region: cynX; PRK09705 381666012618 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 381666012619 nucleoside/Zn binding site; other site 381666012620 dimer interface [polypeptide binding]; other site 381666012621 catalytic motif [active] 381666012622 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666012623 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666012624 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 381666012625 dimerization interface [polypeptide binding]; other site 381666012626 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666012627 active site 381666012628 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 381666012629 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 381666012630 substrate binding site [chemical binding]; other site 381666012631 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 381666012632 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 381666012633 substrate binding site [chemical binding]; other site 381666012634 ligand binding site [chemical binding]; other site 381666012635 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666012636 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666012637 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666012638 DNA-binding site [nucleotide binding]; DNA binding site 381666012639 UTRA domain; Region: UTRA; pfam07702 381666012640 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 381666012641 putative active site [active] 381666012642 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666012643 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 381666012644 putative ligand binding site [chemical binding]; other site 381666012645 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 381666012646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666012647 NAD(P) binding site [chemical binding]; other site 381666012648 active site 381666012649 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666012650 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666012651 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 381666012652 putative dimerization interface [polypeptide binding]; other site 381666012653 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 381666012654 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666012655 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 381666012656 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 381666012657 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 381666012658 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 381666012659 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666012660 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 381666012661 Coenzyme A binding pocket [chemical binding]; other site 381666012662 AMP nucleosidase; Provisional; Region: PRK08292 381666012663 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 381666012664 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 381666012665 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 381666012666 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 381666012667 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 381666012668 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 381666012669 Walker A/P-loop; other site 381666012670 ATP binding site [chemical binding]; other site 381666012671 Q-loop/lid; other site 381666012672 ABC transporter signature motif; other site 381666012673 Walker B; other site 381666012674 D-loop; other site 381666012675 H-loop/switch region; other site 381666012676 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 381666012677 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 381666012678 Walker A/P-loop; other site 381666012679 ATP binding site [chemical binding]; other site 381666012680 Q-loop/lid; other site 381666012681 ABC transporter signature motif; other site 381666012682 Walker B; other site 381666012683 D-loop; other site 381666012684 H-loop/switch region; other site 381666012685 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 381666012686 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 381666012687 TM-ABC transporter signature motif; other site 381666012688 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 381666012689 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666012690 TM-ABC transporter signature motif; other site 381666012691 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666012692 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 381666012693 putative ligand binding site [chemical binding]; other site 381666012694 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 381666012695 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 381666012696 dimer interface [polypeptide binding]; other site 381666012697 phosphorylation site [posttranslational modification] 381666012698 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 381666012699 ATP binding site [chemical binding]; other site 381666012700 Mg2+ binding site [ion binding]; other site 381666012701 G-X-G motif; other site 381666012702 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 381666012703 active site 381666012704 phosphorylation site [posttranslational modification] 381666012705 intermolecular recognition site; other site 381666012706 dimerization interface [polypeptide binding]; other site 381666012707 Response regulator receiver domain; Region: Response_reg; pfam00072 381666012708 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 381666012709 active site 381666012710 phosphorylation site [posttranslational modification] 381666012711 intermolecular recognition site; other site 381666012712 dimerization interface [polypeptide binding]; other site 381666012713 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 381666012714 DNA binding residues [nucleotide binding] 381666012715 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 381666012716 2-isopropylmalate synthase; Validated; Region: PRK03739 381666012717 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 381666012718 active site 381666012719 catalytic residues [active] 381666012720 metal binding site [ion binding]; metal-binding site 381666012721 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 381666012722 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 381666012723 ferrous iron transporter FeoB; Region: feoB; TIGR00437 381666012724 G1 box; other site 381666012725 GTP/Mg2+ binding site [chemical binding]; other site 381666012726 Switch I region; other site 381666012727 G2 box; other site 381666012728 G3 box; other site 381666012729 Switch II region; other site 381666012730 G4 box; other site 381666012731 G5 box; other site 381666012732 Nucleoside recognition; Region: Gate; pfam07670 381666012733 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 381666012734 Nucleoside recognition; Region: Gate; pfam07670 381666012735 FeoA domain; Region: FeoA; pfam04023 381666012736 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666012737 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 381666012738 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 381666012739 putative dimerization interface [polypeptide binding]; other site 381666012740 putative substrate binding pocket [chemical binding]; other site 381666012741 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666012742 active site 381666012743 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666012744 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666012745 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666012746 L-lactate permease; Region: Lactate_perm; cl00701 381666012747 glycolate transporter; Provisional; Region: PRK09695 381666012748 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 381666012749 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 381666012750 4Fe-4S binding domain; Region: Fer4; pfam00037 381666012751 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 381666012752 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 381666012753 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 381666012754 Cysteine-rich domain; Region: CCG; pfam02754 381666012755 Cysteine-rich domain; Region: CCG; pfam02754 381666012756 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666012757 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666012758 DNA-binding site [nucleotide binding]; DNA binding site 381666012759 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 381666012760 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 381666012761 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 381666012762 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 381666012763 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 381666012764 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 381666012765 putative deacylase active site [active] 381666012766 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666012767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666012768 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666012769 putative effector binding pocket; other site 381666012770 dimerization interface [polypeptide binding]; other site 381666012771 short chain dehydrogenase; Provisional; Region: PRK12937 381666012772 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 381666012773 NADP binding site [chemical binding]; other site 381666012774 homodimer interface [polypeptide binding]; other site 381666012775 active site 381666012776 substrate binding site [chemical binding]; other site 381666012777 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 381666012778 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 381666012779 FAD binding pocket [chemical binding]; other site 381666012780 FAD binding motif [chemical binding]; other site 381666012781 phosphate binding motif [ion binding]; other site 381666012782 beta-alpha-beta structure motif; other site 381666012783 NAD binding pocket [chemical binding]; other site 381666012784 fumarate hydratase; Reviewed; Region: fumC; PRK00485 381666012785 Class II fumarases; Region: Fumarase_classII; cd01362 381666012786 active site 381666012787 tetramer interface [polypeptide binding]; other site 381666012788 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666012789 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 381666012790 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 381666012791 dimerization interface [polypeptide binding]; other site 381666012792 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 381666012793 dimerization interface [polypeptide binding]; other site 381666012794 Cache domain; Region: Cache_1; pfam02743 381666012795 PAS fold; Region: PAS_4; pfam08448 381666012796 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 381666012797 putative active site [active] 381666012798 heme pocket [chemical binding]; other site 381666012799 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 381666012800 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666012801 metal binding site [ion binding]; metal-binding site 381666012802 active site 381666012803 I-site; other site 381666012804 CHASE domain; Region: CHASE; pfam03924 381666012805 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 381666012806 PAS domain; Region: PAS_9; pfam13426 381666012807 putative active site [active] 381666012808 PAS domain S-box; Region: sensory_box; TIGR00229 381666012809 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 381666012810 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666012811 metal binding site [ion binding]; metal-binding site 381666012812 active site 381666012813 I-site; other site 381666012814 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 381666012815 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 381666012816 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666012817 Walker A/P-loop; other site 381666012818 ATP binding site [chemical binding]; other site 381666012819 Q-loop/lid; other site 381666012820 ABC transporter signature motif; other site 381666012821 Walker B; other site 381666012822 D-loop; other site 381666012823 H-loop/switch region; other site 381666012824 TOBE domain; Region: TOBE_2; pfam08402 381666012825 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 381666012826 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 381666012827 dimer interface [polypeptide binding]; other site 381666012828 conserved gate region; other site 381666012829 ABC-ATPase subunit interface; other site 381666012830 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 381666012831 dimer interface [polypeptide binding]; other site 381666012832 conserved gate region; other site 381666012833 putative PBP binding loops; other site 381666012834 ABC-ATPase subunit interface; other site 381666012835 putative 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate-binding protein; Region: phnS2; TIGR03261 381666012836 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 381666012837 Predicted transcriptional regulators [Transcription]; Region: COG1695 381666012838 Transcriptional regulator PadR-like family; Region: PadR; cl17335 381666012839 EamA-like transporter family; Region: EamA; pfam00892 381666012840 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 381666012841 EamA-like transporter family; Region: EamA; pfam00892 381666012842 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 381666012843 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 381666012844 non-specific DNA binding site [nucleotide binding]; other site 381666012845 salt bridge; other site 381666012846 sequence-specific DNA binding site [nucleotide binding]; other site 381666012847 ferric uptake regulator; Provisional; Region: fur; PRK09462 381666012848 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 381666012849 metal binding site 2 [ion binding]; metal-binding site 381666012850 putative DNA binding helix; other site 381666012851 metal binding site 1 [ion binding]; metal-binding site 381666012852 dimer interface [polypeptide binding]; other site 381666012853 structural Zn2+ binding site [ion binding]; other site 381666012854 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 381666012855 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 381666012856 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 381666012857 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 381666012858 PRC-barrel domain; Region: PRC; pfam05239 381666012859 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666012860 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666012861 trimer interface [polypeptide binding]; other site 381666012862 eyelet of channel; other site 381666012863 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666012864 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666012865 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 381666012866 dimerization interface [polypeptide binding]; other site 381666012867 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 381666012868 elongation factor G; Reviewed; Region: PRK00007 381666012869 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 381666012870 G1 box; other site 381666012871 putative GEF interaction site [polypeptide binding]; other site 381666012872 GTP/Mg2+ binding site [chemical binding]; other site 381666012873 Switch I region; other site 381666012874 G2 box; other site 381666012875 G3 box; other site 381666012876 Switch II region; other site 381666012877 G4 box; other site 381666012878 G5 box; other site 381666012879 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 381666012880 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 381666012881 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 381666012882 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666012883 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 381666012884 active site 381666012885 phosphorylation site [posttranslational modification] 381666012886 intermolecular recognition site; other site 381666012887 dimerization interface [polypeptide binding]; other site 381666012888 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 381666012889 DNA binding residues [nucleotide binding] 381666012890 dimerization interface [polypeptide binding]; other site 381666012891 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666012892 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666012893 DNA-binding site [nucleotide binding]; DNA binding site 381666012894 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 381666012895 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 381666012896 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 381666012897 active site 381666012898 tetramer interface [polypeptide binding]; other site 381666012899 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666012900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012901 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 381666012902 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 381666012903 dimer interface [polypeptide binding]; other site 381666012904 NADP binding site [chemical binding]; other site 381666012905 catalytic residues [active] 381666012906 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 381666012907 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 381666012908 putative active site [active] 381666012909 catalytic residue [active] 381666012910 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 381666012911 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 381666012912 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 381666012913 active site residue [active] 381666012914 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 381666012915 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666012916 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666012917 trimer interface [polypeptide binding]; other site 381666012918 eyelet of channel; other site 381666012919 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 381666012920 active site pocket [active] 381666012921 oxyanion hole [active] 381666012922 catalytic triad [active] 381666012923 active site nucleophile [active] 381666012924 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 381666012925 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 381666012926 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666012927 catalytic residue [active] 381666012928 OPT oligopeptide transporter protein; Region: OPT; cl14607 381666012929 OPT oligopeptide transporter protein; Region: OPT; cl14607 381666012930 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666012931 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666012932 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666012933 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666012934 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666012935 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 381666012936 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 381666012937 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 381666012938 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 381666012939 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 381666012940 Walker A motif; other site 381666012941 ATP binding site [chemical binding]; other site 381666012942 Walker B motif; other site 381666012943 arginine finger; other site 381666012944 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 381666012945 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 381666012946 ATP-NAD kinase; Region: NAD_kinase; pfam01513 381666012947 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 381666012948 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 381666012949 tetramer interface [polypeptide binding]; other site 381666012950 TPP-binding site [chemical binding]; other site 381666012951 heterodimer interface [polypeptide binding]; other site 381666012952 phosphorylation loop region [posttranslational modification] 381666012953 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 381666012954 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 381666012955 alpha subunit interface [polypeptide binding]; other site 381666012956 TPP binding site [chemical binding]; other site 381666012957 heterodimer interface [polypeptide binding]; other site 381666012958 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 381666012959 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 381666012960 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 381666012961 E3 interaction surface; other site 381666012962 lipoyl attachment site [posttranslational modification]; other site 381666012963 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 381666012964 catalytic site [active] 381666012965 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 381666012966 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 381666012967 OsmC-like protein; Region: OsmC; cl00767 381666012968 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 381666012969 GIY-YIG motif/motif A; other site 381666012970 putative active site [active] 381666012971 putative metal binding site [ion binding]; other site 381666012972 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 381666012973 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666012974 MarR family; Region: MarR; pfam01047 381666012975 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 381666012976 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 381666012977 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 381666012978 protein binding site [polypeptide binding]; other site 381666012979 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 381666012980 protein binding site [polypeptide binding]; other site 381666012981 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 381666012982 putative substrate translocation pore; other site 381666012983 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 381666012984 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666012985 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 381666012986 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 381666012987 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 381666012988 Protein of unknown function DUF58; Region: DUF58; pfam01882 381666012989 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 381666012990 Walker A motif; other site 381666012991 ATP binding site [chemical binding]; other site 381666012992 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 381666012993 Walker B motif; other site 381666012994 arginine finger; other site 381666012995 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 381666012996 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 381666012997 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666012998 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666012999 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 381666013000 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 381666013001 putative substrate translocation pore; other site 381666013002 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013003 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666013004 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666013005 putative effector binding pocket; other site 381666013006 dimerization interface [polypeptide binding]; other site 381666013007 YGGT family; Region: YGGT; pfam02325 381666013008 YGGT family; Region: YGGT; pfam02325 381666013009 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666013010 MarR family; Region: MarR_2; pfam12802 381666013011 acyl-CoA synthetase; Validated; Region: PRK08316 381666013012 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666013013 acyl-activating enzyme (AAE) consensus motif; other site 381666013014 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 381666013015 acyl-activating enzyme (AAE) consensus motif; other site 381666013016 putative AMP binding site [chemical binding]; other site 381666013017 putative active site [active] 381666013018 putative CoA binding site [chemical binding]; other site 381666013019 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 381666013020 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 381666013021 PLD-like domain; Region: PLDc_2; pfam13091 381666013022 putative active site [active] 381666013023 catalytic site [active] 381666013024 Dodecin; Region: Dodecin; pfam07311 381666013025 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 381666013026 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 381666013027 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 381666013028 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 381666013029 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 381666013030 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 381666013031 TadE-like protein; Region: TadE; pfam07811 381666013032 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 381666013033 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 381666013034 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 381666013035 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 381666013036 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 381666013037 AAA domain; Region: AAA_31; pfam13614 381666013038 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 381666013039 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 381666013040 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 381666013041 ATP binding site [chemical binding]; other site 381666013042 Walker A motif; other site 381666013043 hexamer interface [polypeptide binding]; other site 381666013044 Walker B motif; other site 381666013045 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 381666013046 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 381666013047 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 381666013048 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 381666013049 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 381666013050 TPR motif; other site 381666013051 binding surface 381666013052 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 381666013053 Predicted membrane protein [Function unknown]; Region: COG4655 381666013054 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 381666013055 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 381666013056 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 381666013057 Walker A motif; other site 381666013058 ATP binding site [chemical binding]; other site 381666013059 Walker B motif; other site 381666013060 arginine finger; other site 381666013061 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 381666013062 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 381666013063 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 381666013064 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 381666013065 active site 381666013066 metal binding site [ion binding]; metal-binding site 381666013067 DNA binding site [nucleotide binding] 381666013068 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 381666013069 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666013070 AAA domain; Region: AAA_23; pfam13476 381666013071 Walker A/P-loop; other site 381666013072 ATP binding site [chemical binding]; other site 381666013073 Q-loop/lid; other site 381666013074 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 381666013075 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666013076 ABC transporter signature motif; other site 381666013077 Walker B; other site 381666013078 D-loop; other site 381666013079 H-loop/switch region; other site 381666013080 Coenzyme A transferase; Region: CoA_trans; cl17247 381666013081 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 381666013082 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 381666013083 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 381666013084 dimer interface [polypeptide binding]; other site 381666013085 active site 381666013086 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666013087 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013088 NAD(P) binding site [chemical binding]; other site 381666013089 active site 381666013090 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013091 tricarballylate utilization protein B; Provisional; Region: PRK15033 381666013092 tricarballylate dehydrogenase; Validated; Region: PRK08274 381666013093 Predicted oxidoreductase [General function prediction only]; Region: COG3573 381666013094 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 381666013095 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666013096 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 381666013097 putative dimerization interface [polypeptide binding]; other site 381666013098 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013099 FIST N domain; Region: FIST; pfam08495 381666013100 FIST C domain; Region: FIST_C; pfam10442 381666013101 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 381666013102 active site lid residues [active] 381666013103 substrate binding pocket [chemical binding]; other site 381666013104 catalytic residues [active] 381666013105 substrate-Mg2+ binding site; other site 381666013106 aspartate-rich region 1; other site 381666013107 aspartate-rich region 2; other site 381666013108 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 381666013109 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 381666013110 catalytic core [active] 381666013111 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666013112 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666013113 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 381666013114 putative dimerization interface [polypeptide binding]; other site 381666013115 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 381666013116 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 381666013117 dimer interface [polypeptide binding]; other site 381666013118 NADP binding site [chemical binding]; other site 381666013119 catalytic residues [active] 381666013120 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 381666013121 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 381666013122 inhibitor site; inhibition site 381666013123 active site 381666013124 dimer interface [polypeptide binding]; other site 381666013125 catalytic residue [active] 381666013126 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013127 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666013128 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 381666013129 dimerization interface [polypeptide binding]; other site 381666013130 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013131 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 381666013132 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 381666013133 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 381666013134 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 381666013135 putative active site pocket [active] 381666013136 putative metal binding site [ion binding]; other site 381666013137 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666013138 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 381666013139 Coenzyme A binding pocket [chemical binding]; other site 381666013140 Predicted transcriptional regulators [Transcription]; Region: COG1695 381666013141 Transcriptional regulator PadR-like family; Region: PadR; cl17335 381666013142 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 381666013143 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 381666013144 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 381666013145 FMN binding site [chemical binding]; other site 381666013146 substrate binding site [chemical binding]; other site 381666013147 putative catalytic residue [active] 381666013148 SnoaL-like domain; Region: SnoaL_2; pfam12680 381666013149 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 381666013150 Int/Topo IB signature motif; other site 381666013151 DNA binding site [nucleotide binding] 381666013152 active site 381666013153 UDP-glucose 4-epimerase; Region: PLN02240 381666013154 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 381666013155 NAD binding site [chemical binding]; other site 381666013156 homodimer interface [polypeptide binding]; other site 381666013157 active site 381666013158 substrate binding site [chemical binding]; other site 381666013159 H-NS histone family; Region: Histone_HNS; pfam00816 381666013160 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 381666013161 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 381666013162 dimer interface [polypeptide binding]; other site 381666013163 ligand binding site [chemical binding]; other site 381666013164 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 381666013165 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666013166 dimer interface [polypeptide binding]; other site 381666013167 putative CheW interface [polypeptide binding]; other site 381666013168 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666013169 metal binding site [ion binding]; metal-binding site 381666013170 active site 381666013171 I-site; other site 381666013172 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 381666013173 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 381666013174 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 381666013175 active site 381666013176 phosphorylation site [posttranslational modification] 381666013177 intermolecular recognition site; other site 381666013178 dimerization interface [polypeptide binding]; other site 381666013179 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 381666013180 putative CheA interaction surface; other site 381666013181 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 381666013182 PAS fold; Region: PAS_3; pfam08447 381666013183 putative active site [active] 381666013184 heme pocket [chemical binding]; other site 381666013185 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 381666013186 dimerization interface [polypeptide binding]; other site 381666013187 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 381666013188 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666013189 dimer interface [polypeptide binding]; other site 381666013190 putative CheW interface [polypeptide binding]; other site 381666013191 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 381666013192 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 381666013193 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666013194 dimer interface [polypeptide binding]; other site 381666013195 putative CheW interface [polypeptide binding]; other site 381666013196 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 381666013197 transcriptional activator FlhD; Provisional; Region: PRK02909 381666013198 transcriptional activator FlhC; Provisional; Region: PRK12722 381666013199 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 381666013200 flagellar motor protein MotA; Validated; Region: PRK09110 381666013201 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 381666013202 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 381666013203 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666013204 ligand binding site [chemical binding]; other site 381666013205 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 381666013206 putative binding surface; other site 381666013207 active site 381666013208 CheY binding; Region: CheY-binding; pfam09078 381666013209 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 381666013210 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 381666013211 ATP binding site [chemical binding]; other site 381666013212 Mg2+ binding site [ion binding]; other site 381666013213 G-X-G motif; other site 381666013214 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 381666013215 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 381666013216 putative CheA interaction surface; other site 381666013217 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 381666013218 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 381666013219 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 381666013220 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 381666013221 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 381666013222 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 381666013223 active site 381666013224 phosphorylation site [posttranslational modification] 381666013225 intermolecular recognition site; other site 381666013226 dimerization interface [polypeptide binding]; other site 381666013227 CheB methylesterase; Region: CheB_methylest; pfam01339 381666013228 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 381666013229 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 381666013230 active site 381666013231 phosphorylation site [posttranslational modification] 381666013232 intermolecular recognition site; other site 381666013233 dimerization interface [polypeptide binding]; other site 381666013234 chemotaxis regulator CheZ; Provisional; Region: PRK11166 381666013235 haemagglutination activity domain; Region: Haemagg_act; pfam05860 381666013236 Flagellar L-ring protein; Region: FlgH; cl17277 381666013237 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 381666013238 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 381666013239 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 381666013240 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 381666013241 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 381666013242 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 381666013243 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 381666013244 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 381666013245 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 381666013246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 381666013247 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 381666013248 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 381666013249 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 381666013250 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 381666013251 FHIPEP family; Region: FHIPEP; pfam00771 381666013252 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 381666013253 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 381666013254 AAA domain; Region: AAA_31; pfam13614 381666013255 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 381666013256 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 381666013257 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666013258 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 381666013259 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 381666013260 DNA binding residues [nucleotide binding] 381666013261 Flagellar protein FlhE; Region: FlhE; pfam06366 381666013262 FlgN protein; Region: FlgN; pfam05130 381666013263 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 381666013264 SAF-like; Region: SAF_2; pfam13144 381666013265 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 381666013266 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 381666013267 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 381666013268 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 381666013269 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 381666013270 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 381666013271 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 381666013272 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 381666013273 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 381666013274 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 381666013275 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 381666013276 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 381666013277 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 381666013278 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 381666013279 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 381666013280 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 381666013281 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 381666013282 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 381666013283 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12697 381666013284 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 381666013285 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 381666013286 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 381666013287 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12712 381666013288 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 381666013289 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 381666013290 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 381666013291 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 381666013292 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 381666013293 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 381666013294 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 381666013295 trimer interface [polypeptide binding]; other site 381666013296 putative Zn binding site [ion binding]; other site 381666013297 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 381666013298 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 381666013299 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666013300 DNA-binding site [nucleotide binding]; DNA binding site 381666013301 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 381666013302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666013303 homodimer interface [polypeptide binding]; other site 381666013304 catalytic residue [active] 381666013305 Cupin domain; Region: Cupin_2; pfam07883 381666013306 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 381666013307 Uncharacterized conserved protein [Function unknown]; Region: COG2128 381666013308 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 381666013309 active site 381666013310 intersubunit interface [polypeptide binding]; other site 381666013311 catalytic residue [active] 381666013312 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 381666013313 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 381666013314 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666013315 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666013316 trimer interface [polypeptide binding]; other site 381666013317 eyelet of channel; other site 381666013318 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 381666013319 extended (e) SDRs; Region: SDR_e; cd08946 381666013320 NAD(P) binding site [chemical binding]; other site 381666013321 active site 381666013322 substrate binding site [chemical binding]; other site 381666013323 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013324 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 381666013325 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666013326 DNA-binding site [nucleotide binding]; DNA binding site 381666013327 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 381666013328 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 381666013329 homotrimer interaction site [polypeptide binding]; other site 381666013330 putative active site [active] 381666013331 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 381666013332 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 381666013333 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666013334 putative substrate translocation pore; other site 381666013335 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 381666013336 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 381666013337 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 381666013338 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 381666013339 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 381666013340 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666013341 Walker A/P-loop; other site 381666013342 ATP binding site [chemical binding]; other site 381666013343 Q-loop/lid; other site 381666013344 ABC transporter signature motif; other site 381666013345 Walker B; other site 381666013346 D-loop; other site 381666013347 H-loop/switch region; other site 381666013348 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 381666013349 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 381666013350 substrate binding pocket [chemical binding]; other site 381666013351 membrane-bound complex binding site; other site 381666013352 hinge residues; other site 381666013353 selenophosphate synthetase; Provisional; Region: PRK00943 381666013354 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 381666013355 dimerization interface [polypeptide binding]; other site 381666013356 putative ATP binding site [chemical binding]; other site 381666013357 putative glycosyltransferase, TIGR04348 family; Region: TIGR04348 381666013358 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 381666013359 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 381666013360 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 381666013361 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013362 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 381666013363 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 381666013364 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 381666013365 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 381666013366 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666013367 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 381666013368 putative dimerization interface [polypeptide binding]; other site 381666013369 threonine synthase; Validated; Region: PRK06260 381666013370 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 381666013371 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666013372 catalytic residue [active] 381666013373 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013374 aromatic amino acid exporter; Provisional; Region: PRK11689 381666013375 EamA-like transporter family; Region: EamA; pfam00892 381666013376 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666013377 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 381666013378 putative NAD(P) binding site [chemical binding]; other site 381666013379 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 381666013380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013381 NAD(P) binding site [chemical binding]; other site 381666013382 active site 381666013383 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 381666013384 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666013385 DNA-binding site [nucleotide binding]; DNA binding site 381666013386 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 381666013387 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666013388 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666013389 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666013390 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 381666013391 ATP binding site [chemical binding]; other site 381666013392 Mg2+ binding site [ion binding]; other site 381666013393 G-X-G motif; other site 381666013394 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013395 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 381666013396 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666013397 PYR/PP interface [polypeptide binding]; other site 381666013398 dimer interface [polypeptide binding]; other site 381666013399 TPP binding site [chemical binding]; other site 381666013400 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 381666013401 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 381666013402 TPP-binding site [chemical binding]; other site 381666013403 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666013404 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666013405 DNA-binding site [nucleotide binding]; DNA binding site 381666013406 FCD domain; Region: FCD; pfam07729 381666013407 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 381666013408 Sulfatase; Region: Sulfatase; cl17466 381666013409 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 381666013410 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 381666013411 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 381666013412 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 381666013413 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 381666013414 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 381666013415 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 381666013416 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 381666013417 galactarate dehydratase; Region: galactar-dH20; TIGR03248 381666013418 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 381666013419 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 381666013420 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 381666013421 dimer interface [polypeptide binding]; other site 381666013422 NADP binding site [chemical binding]; other site 381666013423 catalytic residues [active] 381666013424 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 381666013425 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666013426 putative substrate translocation pore; other site 381666013427 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 381666013428 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 381666013429 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666013430 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666013431 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 381666013432 putative dimerization interface [polypeptide binding]; other site 381666013433 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 381666013434 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 381666013435 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666013436 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666013437 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666013438 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666013439 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 381666013440 Amidohydrolase; Region: Amidohydro_2; pfam04909 381666013441 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013442 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 381666013443 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666013444 NADP binding site [chemical binding]; other site 381666013445 dimer interface [polypeptide binding]; other site 381666013446 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 381666013447 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 381666013448 substrate binding pocket [chemical binding]; other site 381666013449 membrane-bound complex binding site; other site 381666013450 hinge residues; other site 381666013451 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 381666013452 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013453 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013454 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666013455 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 381666013456 putative dimerization interface [polypeptide binding]; other site 381666013457 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 381666013458 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 381666013459 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013460 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666013461 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 381666013462 dimerization interface [polypeptide binding]; other site 381666013463 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 381666013464 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 381666013465 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666013466 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 381666013467 dimerization interface [polypeptide binding]; other site 381666013468 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 381666013469 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666013470 putative substrate translocation pore; other site 381666013471 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 381666013472 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 381666013473 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 381666013474 ABC transporter; Region: ABC_tran_2; pfam12848 381666013475 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 381666013476 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 381666013477 Isochorismatase family; Region: Isochorismatase; pfam00857 381666013478 catalytic triad [active] 381666013479 dimer interface [polypeptide binding]; other site 381666013480 conserved cis-peptide bond; other site 381666013481 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 381666013482 SAM (Sterile alpha motif ); Region: SAM_superfamily; cl15755 381666013483 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 381666013484 Strictosidine synthase; Region: Str_synth; pfam03088 381666013485 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013486 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 381666013487 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 381666013488 ligand binding site [chemical binding]; other site 381666013489 NAD binding site [chemical binding]; other site 381666013490 dimerization interface [polypeptide binding]; other site 381666013491 catalytic site [active] 381666013492 hypothetical protein; Validated; Region: PRK06201 381666013493 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 381666013494 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013495 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666013496 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666013497 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666013498 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 381666013499 non-specific DNA binding site [nucleotide binding]; other site 381666013500 salt bridge; other site 381666013501 sequence-specific DNA binding site [nucleotide binding]; other site 381666013502 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 381666013503 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 381666013504 putative active site [active] 381666013505 putative catalytic site [active] 381666013506 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 381666013507 active site 2 [active] 381666013508 active site 1 [active] 381666013509 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666013510 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666013511 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666013512 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013513 active site 381666013514 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 381666013515 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 381666013516 active site 381666013517 oxalacetate binding site [chemical binding]; other site 381666013518 citrylCoA binding site [chemical binding]; other site 381666013519 coenzyme A binding site [chemical binding]; other site 381666013520 catalytic triad [active] 381666013521 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 381666013522 CoA binding domain; Region: CoA_binding_2; pfam13380 381666013523 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 381666013524 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 381666013525 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 381666013526 active site 2 [active] 381666013527 active site 1 [active] 381666013528 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666013529 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666013530 active site 381666013531 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 381666013532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013533 NAD(P) binding site [chemical binding]; other site 381666013534 active site 381666013535 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666013536 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 381666013537 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666013538 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013539 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 381666013540 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 381666013541 FMN binding site [chemical binding]; other site 381666013542 substrate binding site [chemical binding]; other site 381666013543 putative catalytic residue [active] 381666013544 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 381666013545 enoyl-CoA hydratase; Provisional; Region: PRK09245 381666013546 substrate binding site [chemical binding]; other site 381666013547 oxyanion hole (OAH) forming residues; other site 381666013548 trimer interface [polypeptide binding]; other site 381666013549 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 381666013550 putative FMN binding site [chemical binding]; other site 381666013551 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666013552 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666013553 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013554 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013555 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 381666013556 CoA binding domain; Region: CoA_binding_2; pfam13380 381666013557 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 381666013558 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 381666013559 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666013560 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013561 active site 381666013562 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666013563 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666013564 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666013565 active site 381666013566 Winged helix-turn helix; Region: HTH_29; pfam13551 381666013567 Homeodomain-like domain; Region: HTH_23; pfam13384 381666013568 DDE superfamily endonuclease; Region: DDE_3; pfam13358 381666013569 AAA ATPase domain; Region: AAA_16; pfam13191 381666013570 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 381666013571 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 381666013572 DNA binding residues [nucleotide binding] 381666013573 dimerization interface [polypeptide binding]; other site 381666013574 Response regulator receiver domain; Region: Response_reg; pfam00072 381666013575 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 381666013576 active site 381666013577 phosphorylation site [posttranslational modification] 381666013578 intermolecular recognition site; other site 381666013579 dimerization interface [polypeptide binding]; other site 381666013580 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 381666013581 cyclase homology domain; Region: CHD; cd07302 381666013582 nucleotidyl binding site; other site 381666013583 metal binding site [ion binding]; metal-binding site 381666013584 dimer interface [polypeptide binding]; other site 381666013585 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 381666013586 PAS fold; Region: PAS_3; pfam08447 381666013587 putative active site [active] 381666013588 heme pocket [chemical binding]; other site 381666013589 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666013590 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 381666013591 dimer interface [polypeptide binding]; other site 381666013592 phosphorylation site [posttranslational modification] 381666013593 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 381666013594 ATP binding site [chemical binding]; other site 381666013595 Mg2+ binding site [ion binding]; other site 381666013596 G-X-G motif; other site 381666013597 Response regulator receiver domain; Region: Response_reg; pfam00072 381666013598 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 381666013599 active site 381666013600 phosphorylation site [posttranslational modification] 381666013601 intermolecular recognition site; other site 381666013602 dimerization interface [polypeptide binding]; other site 381666013603 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666013604 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666013605 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666013606 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013607 active site 381666013608 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013609 active site 381666013610 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 381666013611 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 381666013612 dimer interface [polypeptide binding]; other site 381666013613 active site 381666013614 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666013615 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 381666013616 substrate binding site [chemical binding]; other site 381666013617 oxyanion hole (OAH) forming residues; other site 381666013618 trimer interface [polypeptide binding]; other site 381666013619 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666013620 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013621 active site 381666013622 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666013623 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666013624 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666013625 active site 381666013626 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666013627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013628 NAD(P) binding site [chemical binding]; other site 381666013629 active site 381666013630 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 381666013631 CoA binding domain; Region: CoA_binding_2; pfam13380 381666013632 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 381666013633 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 381666013634 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 381666013635 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666013636 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 381666013637 dimerization interface [polypeptide binding]; other site 381666013638 substrate binding pocket [chemical binding]; other site 381666013639 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 381666013640 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 381666013641 NAD binding site [chemical binding]; other site 381666013642 homodimer interface [polypeptide binding]; other site 381666013643 homotetramer interface [polypeptide binding]; other site 381666013644 active site 381666013645 enoyl-CoA hydratase; Provisional; Region: PRK09245 381666013646 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 381666013647 substrate binding site [chemical binding]; other site 381666013648 oxyanion hole (OAH) forming residues; other site 381666013649 trimer interface [polypeptide binding]; other site 381666013650 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666013651 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666013652 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013653 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013654 Homeodomain-like domain; Region: HTH_23; pfam13384 381666013655 Winged helix-turn helix; Region: HTH_29; pfam13551 381666013656 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 381666013657 AAA ATPase domain; Region: AAA_16; pfam13191 381666013658 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 381666013659 DNA binding residues [nucleotide binding] 381666013660 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013661 NAD(P) binding site [chemical binding]; other site 381666013662 active site 381666013663 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 381666013664 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666013665 FAD binding site [chemical binding]; other site 381666013666 substrate binding site [chemical binding]; other site 381666013667 catalytic base [active] 381666013668 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666013669 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666013670 active site 381666013671 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 381666013672 putative active site [active] 381666013673 putative catalytic site [active] 381666013674 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013675 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013676 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666013677 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013678 active site 381666013679 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 381666013680 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 381666013681 FMN binding site [chemical binding]; other site 381666013682 substrate binding site [chemical binding]; other site 381666013683 putative catalytic residue [active] 381666013684 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666013685 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 381666013686 substrate binding site [chemical binding]; other site 381666013687 oxyanion hole (OAH) forming residues; other site 381666013688 trimer interface [polypeptide binding]; other site 381666013689 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 381666013690 salt bridge; other site 381666013691 non-specific DNA binding site [nucleotide binding]; other site 381666013692 sequence-specific DNA binding site [nucleotide binding]; other site 381666013693 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 381666013694 CoA binding domain; Region: CoA_binding_2; pfam13380 381666013695 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 381666013696 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 381666013697 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 381666013698 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 381666013699 DUF35 OB-fold domain; Region: DUF35; pfam01796 381666013700 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 381666013701 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 381666013702 active site 381666013703 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 381666013704 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666013705 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666013706 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666013707 trimer interface [polypeptide binding]; other site 381666013708 eyelet of channel; other site 381666013709 choline dehydrogenase; Validated; Region: PRK02106 381666013710 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 381666013711 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 381666013712 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 381666013713 SCP-2 sterol transfer family; Region: SCP2; pfam02036 381666013714 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 381666013715 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666013716 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666013717 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666013718 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 381666013719 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 381666013720 active site 381666013721 oxalacetate binding site [chemical binding]; other site 381666013722 citrylCoA binding site [chemical binding]; other site 381666013723 coenzyme A binding site [chemical binding]; other site 381666013724 catalytic triad [active] 381666013725 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 381666013726 active site 2 [active] 381666013727 active site 1 [active] 381666013728 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666013729 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 381666013730 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666013731 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013732 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666013733 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 381666013734 substrate binding site [chemical binding]; other site 381666013735 oxyanion hole (OAH) forming residues; other site 381666013736 trimer interface [polypeptide binding]; other site 381666013737 enoyl-CoA hydratase; Provisional; Region: PRK06495 381666013738 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 381666013739 substrate binding site [chemical binding]; other site 381666013740 oxyanion hole (OAH) forming residues; other site 381666013741 trimer interface [polypeptide binding]; other site 381666013742 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 381666013743 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666013744 NAD binding site [chemical binding]; other site 381666013745 catalytic residues [active] 381666013746 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 381666013747 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666013748 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 381666013749 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013750 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666013751 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666013752 putative effector binding pocket; other site 381666013753 dimerization interface [polypeptide binding]; other site 381666013754 Uncharacterized conserved protein [Function unknown]; Region: COG3791 381666013755 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 381666013756 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 381666013757 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666013758 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 381666013759 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 381666013760 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 381666013761 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 381666013762 putative active site [active] 381666013763 putative catalytic site [active] 381666013764 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 381666013765 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666013766 putative substrate translocation pore; other site 381666013767 hypothetical protein; Provisional; Region: PRK10621 381666013768 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 381666013769 hypothetical protein; Provisional; Region: PRK08204 381666013770 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 381666013771 active site 381666013772 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_3; cd06151 381666013773 homotrimer interaction site [polypeptide binding]; other site 381666013774 putative active site [active] 381666013775 Cytochrome c; Region: Cytochrom_C; pfam00034 381666013776 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666013777 putative effector binding pocket; other site 381666013778 dimerization interface [polypeptide binding]; other site 381666013779 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013780 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 381666013781 Ligand Binding Site [chemical binding]; other site 381666013782 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 381666013783 Cation transport protein; Region: TrkH; cl17365 381666013784 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 381666013785 DNA binding site [nucleotide binding] 381666013786 Int/Topo IB signature motif; other site 381666013787 active site 381666013788 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 381666013789 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 381666013790 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 381666013791 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 381666013792 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 381666013793 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 381666013794 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 381666013795 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 381666013796 NAD binding site [chemical binding]; other site 381666013797 Phe binding site; other site 381666013798 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 381666013799 Helix-turn-helix domain; Region: HTH_38; pfam13936 381666013800 Homeodomain-like domain; Region: HTH_32; pfam13565 381666013801 Integrase core domain; Region: rve; pfam00665 381666013802 glutathionine S-transferase; Provisional; Region: PRK10542 381666013803 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 381666013804 C-terminal domain interface [polypeptide binding]; other site 381666013805 GSH binding site (G-site) [chemical binding]; other site 381666013806 dimer interface [polypeptide binding]; other site 381666013807 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 381666013808 N-terminal domain interface [polypeptide binding]; other site 381666013809 dimer interface [polypeptide binding]; other site 381666013810 substrate binding pocket (H-site) [chemical binding]; other site 381666013811 Predicted transcriptional regulators [Transcription]; Region: COG1733 381666013812 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 381666013813 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 381666013814 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 381666013815 dimer interface [polypeptide binding]; other site 381666013816 conserved gate region; other site 381666013817 putative PBP binding loops; other site 381666013818 ABC-ATPase subunit interface; other site 381666013819 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 381666013820 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 381666013821 dimer interface [polypeptide binding]; other site 381666013822 conserved gate region; other site 381666013823 putative PBP binding loops; other site 381666013824 ABC-ATPase subunit interface; other site 381666013825 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 381666013826 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 381666013827 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 381666013828 homotrimer interaction site [polypeptide binding]; other site 381666013829 putative active site [active] 381666013830 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 381666013831 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013832 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666013833 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 381666013834 putative substrate binding pocket [chemical binding]; other site 381666013835 dimerization interface [polypeptide binding]; other site 381666013836 acetylornithine deacetylase; Provisional; Region: PRK07522 381666013837 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 381666013838 metal binding site [ion binding]; metal-binding site 381666013839 putative dimer interface [polypeptide binding]; other site 381666013840 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 381666013841 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 381666013842 phosphate binding site [ion binding]; other site 381666013843 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 381666013844 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666013845 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 381666013846 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666013847 Walker A/P-loop; other site 381666013848 ATP binding site [chemical binding]; other site 381666013849 Q-loop/lid; other site 381666013850 ABC transporter signature motif; other site 381666013851 Walker B; other site 381666013852 D-loop; other site 381666013853 H-loop/switch region; other site 381666013854 TOBE domain; Region: TOBE_2; pfam08402 381666013855 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 381666013856 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 381666013857 NAD(P) binding site [chemical binding]; other site 381666013858 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666013859 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 381666013860 putative C-terminal domain interface [polypeptide binding]; other site 381666013861 putative GSH binding site (G-site) [chemical binding]; other site 381666013862 putative dimer interface [polypeptide binding]; other site 381666013863 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 381666013864 dimer interface [polypeptide binding]; other site 381666013865 N-terminal domain interface [polypeptide binding]; other site 381666013866 putative substrate binding pocket (H-site) [chemical binding]; other site 381666013867 Dehydroquinase class II; Region: DHquinase_II; pfam01220 381666013868 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 381666013869 trimer interface [polypeptide binding]; other site 381666013870 active site 381666013871 dimer interface [polypeptide binding]; other site 381666013872 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 381666013873 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 381666013874 putative ligand binding site [chemical binding]; other site 381666013875 NAD binding site [chemical binding]; other site 381666013876 dimerization interface [polypeptide binding]; other site 381666013877 catalytic site [active] 381666013878 His-Xaa-Ser system radical SAM maturase HxsC; Region: rSAM_pair_HxsC; TIGR03977 381666013879 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 381666013880 FeS/SAM binding site; other site 381666013881 His-Xaa-Ser system radical SAM maturase HxsB; Region: rSAM_paired_1; TIGR03978 381666013882 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 381666013883 FeS/SAM binding site; other site 381666013884 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 381666013885 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666013886 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666013887 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 381666013888 XapX domain; Region: XapX; TIGR03510 381666013889 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 381666013890 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666013891 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 381666013892 dimer interface [polypeptide binding]; other site 381666013893 phosphorylation site [posttranslational modification] 381666013894 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 381666013895 ATP binding site [chemical binding]; other site 381666013896 Mg2+ binding site [ion binding]; other site 381666013897 G-X-G motif; other site 381666013898 hypothetical protein; Provisional; Region: PRK07179 381666013899 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 381666013900 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666013901 catalytic residue [active] 381666013902 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013903 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 381666013904 putative dimerization interface [polypeptide binding]; other site 381666013905 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013906 Sulfatase; Region: Sulfatase; cl17466 381666013907 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 381666013908 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013909 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666013910 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 381666013911 dimerization interface [polypeptide binding]; other site 381666013912 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666013913 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013914 active site 381666013915 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013916 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666013917 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666013918 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666013919 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666013920 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666013921 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013922 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666013923 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 381666013924 dimerization interface [polypeptide binding]; other site 381666013925 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 381666013926 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 381666013927 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 381666013928 metal binding site [ion binding]; metal-binding site 381666013929 putative dimer interface [polypeptide binding]; other site 381666013930 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 381666013931 Transcriptional regulators [Transcription]; Region: MarR; COG1846 381666013932 MarR family; Region: MarR_2; cl17246 381666013933 cysteine desulfurase; Provisional; Region: PRK14012 381666013934 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 381666013935 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666013936 catalytic residue [active] 381666013937 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 381666013938 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 381666013939 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013940 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 381666013941 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 381666013942 amidase; Provisional; Region: PRK07056 381666013943 Amidase; Region: Amidase; cl11426 381666013944 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666013945 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 381666013946 putative ligand binding site [chemical binding]; other site 381666013947 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 381666013948 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666013949 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 381666013950 Walker A/P-loop; other site 381666013951 ATP binding site [chemical binding]; other site 381666013952 Q-loop/lid; other site 381666013953 ABC transporter signature motif; other site 381666013954 Walker B; other site 381666013955 D-loop; other site 381666013956 H-loop/switch region; other site 381666013957 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666013958 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 381666013959 Walker A/P-loop; other site 381666013960 ATP binding site [chemical binding]; other site 381666013961 Q-loop/lid; other site 381666013962 ABC transporter signature motif; other site 381666013963 Walker B; other site 381666013964 D-loop; other site 381666013965 H-loop/switch region; other site 381666013966 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 381666013967 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666013968 TM-ABC transporter signature motif; other site 381666013969 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 381666013970 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 381666013971 TM-ABC transporter signature motif; other site 381666013972 PAAR motif; Region: PAAR_motif; pfam05488 381666013973 PAAR motif; Region: PAAR_motif; pfam05488 381666013974 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 381666013975 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 381666013976 hydroxyglutarate oxidase; Provisional; Region: PRK11728 381666013977 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 381666013978 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 381666013979 N-terminal plug; other site 381666013980 ligand-binding site [chemical binding]; other site 381666013981 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 381666013982 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013983 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666013984 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666013985 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666013986 DNA-binding site [nucleotide binding]; DNA binding site 381666013987 UTRA domain; Region: UTRA; pfam07702 381666013988 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 381666013989 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 381666013990 active site 381666013991 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013992 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666013993 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 381666013994 putative effector binding pocket; other site 381666013995 putative dimerization interface [polypeptide binding]; other site 381666013996 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 381666013997 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666013998 putative NAD(P) binding site [chemical binding]; other site 381666013999 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 381666014000 hypothetical protein; Provisional; Region: PRK09040 381666014001 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666014002 ligand binding site [chemical binding]; other site 381666014003 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 381666014004 Domain of unknown function (DUF802); Region: DUF802; pfam05650 381666014005 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 381666014006 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666014007 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 381666014008 C-terminal domain interface [polypeptide binding]; other site 381666014009 GSH binding site (G-site) [chemical binding]; other site 381666014010 dimer interface [polypeptide binding]; other site 381666014011 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 381666014012 N-terminal domain interface [polypeptide binding]; other site 381666014013 dimer interface [polypeptide binding]; other site 381666014014 substrate binding pocket (H-site) [chemical binding]; other site 381666014015 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666014016 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 381666014017 active site 381666014018 phosphorylation site [posttranslational modification] 381666014019 intermolecular recognition site; other site 381666014020 dimerization interface [polypeptide binding]; other site 381666014021 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 381666014022 DNA binding residues [nucleotide binding] 381666014023 dimerization interface [polypeptide binding]; other site 381666014024 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666014025 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 381666014026 dimer interface [polypeptide binding]; other site 381666014027 phosphorylation site [posttranslational modification] 381666014028 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 381666014029 ATP binding site [chemical binding]; other site 381666014030 Mg2+ binding site [ion binding]; other site 381666014031 G-X-G motif; other site 381666014032 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 381666014033 Response regulator receiver domain; Region: Response_reg; pfam00072 381666014034 active site 381666014035 phosphorylation site [posttranslational modification] 381666014036 intermolecular recognition site; other site 381666014037 dimerization interface [polypeptide binding]; other site 381666014038 Uncharacterized conserved protein [Function unknown]; Region: COG5361 381666014039 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 381666014040 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 381666014041 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 381666014042 dimer interface [polypeptide binding]; other site 381666014043 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666014044 ligand binding site [chemical binding]; other site 381666014045 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 381666014046 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 381666014047 substrate binding pocket [chemical binding]; other site 381666014048 membrane-bound complex binding site; other site 381666014049 hinge residues; other site 381666014050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666014051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666014052 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 381666014053 putative substrate binding pocket [chemical binding]; other site 381666014054 putative dimerization interface [polypeptide binding]; other site 381666014055 amidase; Provisional; Region: PRK08137 381666014056 Amidase; Region: Amidase; cl11426 381666014057 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666014058 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666014059 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 381666014060 dimerization interface [polypeptide binding]; other site 381666014061 substrate binding pocket [chemical binding]; other site 381666014062 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 381666014063 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 381666014064 active site 381666014065 putative substrate binding pocket [chemical binding]; other site 381666014066 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666014067 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 381666014068 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 381666014069 Phosphoesterase family; Region: Phosphoesterase; pfam04185 381666014070 Domain of unknown function (DUF756); Region: DUF756; pfam05506 381666014071 Domain of unknown function (DUF756); Region: DUF756; pfam05506 381666014072 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 381666014073 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666014074 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 381666014075 dimerization interface [polypeptide binding]; other site 381666014076 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 381666014077 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 381666014078 octamer interface [polypeptide binding]; other site 381666014079 active site 381666014080 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666014081 Activator of aromatic catabolism; Region: XylR_N; pfam06505 381666014082 V4R domain; Region: V4R; pfam02830 381666014083 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 381666014084 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 381666014085 Walker A motif; other site 381666014086 ATP binding site [chemical binding]; other site 381666014087 Walker B motif; other site 381666014088 arginine finger; other site 381666014089 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 381666014090 [2Fe-2S] cluster binding site [ion binding]; other site 381666014091 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 381666014092 Phenol hydroxylase subunit; Region: Phenol_hyd_sub; pfam06099 381666014093 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 381666014094 dimerization interface [polypeptide binding]; other site 381666014095 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 381666014096 Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain; Region: AAMH_A; cd01057 381666014097 dimerization interface [polypeptide binding]; other site 381666014098 putative path to active site cavity [active] 381666014099 diiron center [ion binding]; other site 381666014100 Phenol hydroxylase conserved region; Region: Phenol_monoox; pfam04663 381666014101 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 381666014102 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 381666014103 catalytic loop [active] 381666014104 iron binding site [ion binding]; other site 381666014105 Phenol 2-monooxygenase (phenol hydroxylase) is a flavoprotein monooxygenase, able to use molecular oxygen as a substrate in the microbial degredation of phenol. This protein is encoded by a single gene and uses a tightly bound FAD cofactor in the NAD(P)H...; Region: phenol_2-monooxygenase_like; cd06211 381666014106 FAD binding pocket [chemical binding]; other site 381666014107 FAD binding motif [chemical binding]; other site 381666014108 phosphate binding motif [ion binding]; other site 381666014109 beta-alpha-beta structure motif; other site 381666014110 NAD binding pocket [chemical binding]; other site 381666014111 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 381666014112 catalytic loop [active] 381666014113 iron binding site [ion binding]; other site 381666014114 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 381666014115 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 381666014116 active site 381666014117 metal binding site [ion binding]; metal-binding site 381666014118 C-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_C; cd07243 381666014119 tetramer interface [polypeptide binding]; other site 381666014120 active site 381666014121 Fe binding site [ion binding]; other site 381666014122 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 381666014123 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 381666014124 NAD binding site [chemical binding]; other site 381666014125 catalytic residues [active] 381666014126 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 381666014127 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 381666014128 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 381666014129 active site 1 [active] 381666014130 dimer interface [polypeptide binding]; other site 381666014131 hexamer interface [polypeptide binding]; other site 381666014132 active site 2 [active] 381666014133 acetaldehyde dehydrogenase; Validated; Region: PRK08300 381666014134 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 381666014135 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 381666014136 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 381666014137 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 381666014138 active site 381666014139 catalytic residues [active] 381666014140 metal binding site [ion binding]; metal-binding site 381666014141 DmpG-like communication domain; Region: DmpG_comm; pfam07836 381666014142 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 381666014143 Beta-lactamase; Region: Beta-lactamase; pfam00144 381666014144 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 381666014145 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 381666014146 tetramer interface [polypeptide binding]; other site 381666014147 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666014148 catalytic residue [active] 381666014149 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 381666014150 hypothetical protein; Reviewed; Region: PRK09588 381666014151 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666014152 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 381666014153 active site 381666014154 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 381666014155 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 381666014156 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 381666014157 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666014158 MarR family; Region: MarR; pfam01047 381666014159 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 381666014160 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 381666014161 dimerization interface [polypeptide binding]; other site 381666014162 active site 381666014163 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 381666014164 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 381666014165 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 381666014166 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 381666014167 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 381666014168 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 381666014169 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 381666014170 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 381666014171 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 381666014172 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 381666014173 substrate binding site [chemical binding]; other site 381666014174 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 381666014175 substrate binding site [chemical binding]; other site 381666014176 ligand binding site [chemical binding]; other site 381666014177 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666014178 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 381666014179 active site 381666014180 phosphorylation site [posttranslational modification] 381666014181 intermolecular recognition site; other site 381666014182 dimerization interface [polypeptide binding]; other site 381666014183 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 381666014184 DNA binding residues [nucleotide binding] 381666014185 dimerization interface [polypeptide binding]; other site 381666014186 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666014187 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 381666014188 dimer interface [polypeptide binding]; other site 381666014189 phosphorylation site [posttranslational modification] 381666014190 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 381666014191 ATP binding site [chemical binding]; other site 381666014192 Mg2+ binding site [ion binding]; other site 381666014193 G-X-G motif; other site 381666014194 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 381666014195 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 381666014196 active site 381666014197 phosphorylation site [posttranslational modification] 381666014198 intermolecular recognition site; other site 381666014199 dimerization interface [polypeptide binding]; other site 381666014200 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666014201 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 381666014202 C-terminal domain interface [polypeptide binding]; other site 381666014203 GSH binding site (G-site) [chemical binding]; other site 381666014204 dimer interface [polypeptide binding]; other site 381666014205 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 381666014206 dimer interface [polypeptide binding]; other site 381666014207 N-terminal domain interface [polypeptide binding]; other site 381666014208 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 381666014209 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 381666014210 Methyltransferase domain; Region: Methyltransf_23; pfam13489 381666014211 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 381666014212 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 381666014213 oligomeric interface; other site 381666014214 putative active site [active] 381666014215 homodimer interface [polypeptide binding]; other site 381666014216 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 381666014217 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666014218 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666014219 LysR substrate binding domain; Region: LysR_substrate; pfam03466 381666014220 dimerization interface [polypeptide binding]; other site 381666014221 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666014222 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666014223 active site 381666014224 Outer membrane efflux protein; Region: OEP; pfam02321 381666014225 Outer membrane efflux protein; Region: OEP; pfam02321 381666014226 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666014227 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 381666014228 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666014229 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 381666014230 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 381666014231 CsbD-like; Region: CsbD; cl17424 381666014232 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666014233 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 381666014234 dimer interface [polypeptide binding]; other site 381666014235 phosphorylation site [posttranslational modification] 381666014236 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 381666014237 ATP binding site [chemical binding]; other site 381666014238 Mg2+ binding site [ion binding]; other site 381666014239 G-X-G motif; other site 381666014240 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 381666014241 active site 381666014242 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666014243 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666014244 DNA-binding site [nucleotide binding]; DNA binding site 381666014245 UTRA domain; Region: UTRA; cl17743 381666014246 hypothetical protein; Validated; Region: PRK07586 381666014247 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666014248 PYR/PP interface [polypeptide binding]; other site 381666014249 dimer interface [polypeptide binding]; other site 381666014250 TPP binding site [chemical binding]; other site 381666014251 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 381666014252 TPP-binding site [chemical binding]; other site 381666014253 dimer interface [polypeptide binding]; other site 381666014254 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 381666014255 DUF35 OB-fold domain; Region: DUF35; pfam01796 381666014256 thiolase; Provisional; Region: PRK06158 381666014257 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 381666014258 active site 381666014259 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 381666014260 Survival protein SurE; Region: SurE; pfam01975 381666014261 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 381666014262 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 381666014263 active site 381666014264 catalytic residues [active] 381666014265 metal binding site [ion binding]; metal-binding site 381666014266 DmpG-like communication domain; Region: DmpG_comm; pfam07836 381666014267 acetaldehyde dehydrogenase; Validated; Region: PRK08300 381666014268 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 381666014269 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 381666014270 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 381666014271 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 381666014272 short chain dehydrogenase; Provisional; Region: PRK07856 381666014273 classical (c) SDRs; Region: SDR_c; cd05233 381666014274 NAD(P) binding site [chemical binding]; other site 381666014275 active site 381666014276 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 381666014277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014278 NAD(P) binding site [chemical binding]; other site 381666014279 active site 381666014280 ketosteroid isomerase: Many biological reactions proceed by enzymatic cleavage of a C-H bond adjacent to carbonyl or a carboxyl group, leading to an enol or a enolate intermediate that is subsequently re-protonated at the same or an adjacent carbon; Region: ketosteroid_isomerase; cd00781 381666014281 dimer interface [polypeptide binding]; other site 381666014282 active site/substrate binding site [active] 381666014283 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666014284 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 381666014285 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 381666014286 metal binding site [ion binding]; metal-binding site 381666014287 putative dimer interface [polypeptide binding]; other site 381666014288 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666014289 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666014290 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666014291 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 381666014292 dimerization interface [polypeptide binding]; other site 381666014293 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 381666014294 putative hydrophobic ligand binding site [chemical binding]; other site 381666014295 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 381666014296 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666014297 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 381666014298 glycerate dehydrogenase; Provisional; Region: PRK06932 381666014299 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 381666014300 putative ligand binding site [chemical binding]; other site 381666014301 putative NAD binding site [chemical binding]; other site 381666014302 catalytic site [active] 381666014303 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 381666014304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666014305 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 381666014306 dimer interface [polypeptide binding]; other site 381666014307 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666014308 metal binding site [ion binding]; metal-binding site 381666014309 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 381666014310 active site 381666014311 catalytic residues [active] 381666014312 metal binding site [ion binding]; metal-binding site 381666014313 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666014314 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666014315 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666014316 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666014317 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 381666014318 putative dimerization interface [polypeptide binding]; other site 381666014319 glutamine synthetase, type I; Region: GlnA; TIGR00653 381666014320 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 381666014321 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 381666014322 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 381666014323 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666014324 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 381666014325 dimerization interface [polypeptide binding]; other site 381666014326 substrate binding pocket [chemical binding]; other site 381666014327 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 381666014328 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666014329 catalytic residue [active] 381666014330 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666014331 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 381666014332 active site 381666014333 phosphorylation site [posttranslational modification] 381666014334 intermolecular recognition site; other site 381666014335 dimerization interface [polypeptide binding]; other site 381666014336 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 381666014337 DNA binding residues [nucleotide binding] 381666014338 dimerization interface [polypeptide binding]; other site 381666014339 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 381666014340 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666014341 Histidine kinase; Region: HisKA_3; pfam07730 381666014342 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 381666014343 ATP binding site [chemical binding]; other site 381666014344 Mg2+ binding site [ion binding]; other site 381666014345 G-X-G motif; other site 381666014346 Isochorismatase family; Region: Isochorismatase; pfam00857 381666014347 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 381666014348 catalytic triad [active] 381666014349 conserved cis-peptide bond; other site 381666014350 SnoaL-like domain; Region: SnoaL_4; pfam13577 381666014351 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666014352 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 381666014353 DNA binding residues [nucleotide binding] 381666014354 dimerization interface [polypeptide binding]; other site 381666014355 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 381666014356 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 381666014357 CysD dimerization site [polypeptide binding]; other site 381666014358 G1 box; other site 381666014359 putative GEF interaction site [polypeptide binding]; other site 381666014360 GTP/Mg2+ binding site [chemical binding]; other site 381666014361 Switch I region; other site 381666014362 G2 box; other site 381666014363 G3 box; other site 381666014364 Switch II region; other site 381666014365 G4 box; other site 381666014366 G5 box; other site 381666014367 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 381666014368 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 381666014369 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 381666014370 ligand-binding site [chemical binding]; other site 381666014371 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 381666014372 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 381666014373 Active Sites [active] 381666014374 short chain dehydrogenase; Provisional; Region: PRK07890 381666014375 classical (c) SDRs; Region: SDR_c; cd05233 381666014376 NAD(P) binding site [chemical binding]; other site 381666014377 active site 381666014378 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 381666014379 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 381666014380 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 381666014381 dimerization interface [polypeptide binding]; other site 381666014382 active site 381666014383 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 381666014384 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 381666014385 substrate binding pocket [chemical binding]; other site 381666014386 classical (c) SDRs; Region: SDR_c; cd05233 381666014387 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 381666014388 NAD(P) binding site [chemical binding]; other site 381666014389 active site 381666014390 PAS fold; Region: PAS; pfam00989 381666014391 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666014392 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 381666014393 DNA binding residues [nucleotide binding] 381666014394 dimerization interface [polypeptide binding]; other site 381666014395 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 381666014396 active site 381666014397 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 381666014398 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 381666014399 Naphthocyclinone hydroxylase; Region: NcnH; cd01159 381666014400 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666014401 Flavin binding site [chemical binding]; other site 381666014402 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 381666014403 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 381666014404 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 381666014405 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 381666014406 hypothetical protein; Validated; Region: PRK07121 381666014407 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 381666014408 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014409 short chain dehydrogenase; Validated; Region: PRK07069 381666014410 NAD(P) binding site [chemical binding]; other site 381666014411 active site 381666014412 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 381666014413 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 381666014414 FAD binding pocket [chemical binding]; other site 381666014415 FAD binding motif [chemical binding]; other site 381666014416 phosphate binding motif [ion binding]; other site 381666014417 beta-alpha-beta structure motif; other site 381666014418 NAD(p) ribose binding residues [chemical binding]; other site 381666014419 NAD binding pocket [chemical binding]; other site 381666014420 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 381666014421 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 381666014422 catalytic loop [active] 381666014423 iron binding site [ion binding]; other site 381666014424 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 381666014425 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666014426 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 381666014427 acyl-activating enzyme (AAE) consensus motif; other site 381666014428 acyl-activating enzyme (AAE) consensus motif; other site 381666014429 putative AMP binding site [chemical binding]; other site 381666014430 putative active site [active] 381666014431 putative CoA binding site [chemical binding]; other site 381666014432 CoA binding site [chemical binding]; other site 381666014433 SnoaL-like domain; Region: SnoaL_4; pfam13577 381666014434 short chain dehydrogenase; Provisional; Region: PRK08303 381666014435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014436 NAD(P) binding site [chemical binding]; other site 381666014437 active site 381666014438 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 381666014439 SnoaL-like domain; Region: SnoaL_3; pfam13474 381666014440 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 381666014441 classical (c) SDRs; Region: SDR_c; cd05233 381666014442 NAD(P) binding site [chemical binding]; other site 381666014443 active site 381666014444 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014445 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 381666014446 NAD(P) binding site [chemical binding]; other site 381666014447 active site 381666014448 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 381666014449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014450 NAD(P) binding site [chemical binding]; other site 381666014451 active site 381666014452 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666014453 classical (c) SDRs; Region: SDR_c; cd05233 381666014454 NAD(P) binding site [chemical binding]; other site 381666014455 active site 381666014456 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666014457 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 381666014458 DNA binding residues [nucleotide binding] 381666014459 dimerization interface [polypeptide binding]; other site 381666014460 EthD domain; Region: EthD; pfam07110 381666014461 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 381666014462 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 381666014463 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 381666014464 active site 381666014465 Fe binding site [ion binding]; other site 381666014466 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 381666014467 Coenzyme A transferase; Region: CoA_trans; cl17247 381666014468 enoyl-CoA hydratase; Provisional; Region: PRK08290 381666014469 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 381666014470 substrate binding site [chemical binding]; other site 381666014471 oxyanion hole (OAH) forming residues; other site 381666014472 trimer interface [polypeptide binding]; other site 381666014473 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 381666014474 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 381666014475 FMN binding site [chemical binding]; other site 381666014476 substrate binding site [chemical binding]; other site 381666014477 putative catalytic residue [active] 381666014478 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 381666014479 enoyl-CoA hydratase; Provisional; Region: PRK06495 381666014480 substrate binding site [chemical binding]; other site 381666014481 oxyanion hole (OAH) forming residues; other site 381666014482 trimer interface [polypeptide binding]; other site 381666014483 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666014484 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 381666014485 FAD binding site [chemical binding]; other site 381666014486 substrate binding site [chemical binding]; other site 381666014487 catalytic base [active] 381666014488 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666014489 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666014490 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666014491 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 381666014492 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 381666014493 dimer interface [polypeptide binding]; other site 381666014494 active site 381666014495 short chain dehydrogenase; Provisional; Region: PRK07791 381666014496 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014497 NAD(P) binding site [chemical binding]; other site 381666014498 active site 381666014499 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666014500 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666014501 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666014502 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666014503 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666014504 active site 381666014505 short chain dehydrogenase; Provisional; Region: PRK07831 381666014506 classical (c) SDRs; Region: SDR_c; cd05233 381666014507 NAD(P) binding site [chemical binding]; other site 381666014508 active site 381666014509 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 381666014510 putative active site [active] 381666014511 putative catalytic site [active] 381666014512 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 381666014513 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 381666014514 dimer interface [polypeptide binding]; other site 381666014515 active site 381666014516 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 381666014517 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 381666014518 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 381666014519 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 381666014520 active site 381666014521 FMN binding site [chemical binding]; other site 381666014522 substrate binding site [chemical binding]; other site 381666014523 putative catalytic residue [active] 381666014524 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 381666014525 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 381666014526 iron-sulfur cluster [ion binding]; other site 381666014527 [2Fe-2S] cluster binding site [ion binding]; other site 381666014528 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014529 NAD(P) binding site [chemical binding]; other site 381666014530 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 381666014531 active site 381666014532 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 381666014533 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666014534 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666014535 active site 381666014536 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666014537 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 381666014538 FAD binding site [chemical binding]; other site 381666014539 substrate binding site [chemical binding]; other site 381666014540 catalytic base [active] 381666014541 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 381666014542 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666014543 acyl-activating enzyme (AAE) consensus motif; other site 381666014544 AMP binding site [chemical binding]; other site 381666014545 active site 381666014546 CoA binding site [chemical binding]; other site 381666014547 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666014548 Uncharacterized conserved protein [Function unknown]; Region: COG3777 381666014549 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 381666014550 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 381666014551 active site 2 [active] 381666014552 active site 1 [active] 381666014553 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 381666014554 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 381666014555 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666014556 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666014557 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666014558 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666014559 active site 381666014560 MgtC family; Region: MgtC; pfam02308 381666014561 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 381666014562 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666014563 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666014564 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 381666014565 putative dimerization interface [polypeptide binding]; other site 381666014566 short chain dehydrogenase; Provisional; Region: PRK07791 381666014567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014568 NAD(P) binding site [chemical binding]; other site 381666014569 active site 381666014570 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666014571 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666014572 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 381666014573 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 381666014574 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 381666014575 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 381666014576 Walker A/P-loop; other site 381666014577 ATP binding site [chemical binding]; other site 381666014578 Q-loop/lid; other site 381666014579 ABC transporter signature motif; other site 381666014580 Walker B; other site 381666014581 D-loop; other site 381666014582 H-loop/switch region; other site 381666014583 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 381666014584 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666014585 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666014586 VCBS repeat; Region: VCBS_repeat; TIGR01965 381666014587 VCBS repeat; Region: VCBS_repeat; TIGR01965 381666014588 VCBS repeat; Region: VCBS_repeat; TIGR01965 381666014589 VCBS repeat; Region: VCBS_repeat; TIGR01965 381666014590 VCBS repeat; Region: VCBS_repeat; TIGR01965 381666014591 VCBS repeat; Region: VCBS_repeat; TIGR01965 381666014592 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 381666014593 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 381666014594 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666014595 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666014596 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666014597 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666014598 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 381666014599 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666014600 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 381666014601 acyl-activating enzyme (AAE) consensus motif; other site 381666014602 putative AMP binding site [chemical binding]; other site 381666014603 putative active site [active] 381666014604 putative CoA binding site [chemical binding]; other site 381666014605 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666014606 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666014607 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 381666014608 substrate binding site [chemical binding]; other site 381666014609 oxyanion hole (OAH) forming residues; other site 381666014610 trimer interface [polypeptide binding]; other site 381666014611 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666014612 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666014613 active site 381666014614 PrkA family serine protein kinase; Provisional; Region: PRK15455 381666014615 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 381666014616 hypothetical protein; Provisional; Region: PRK05325 381666014617 SpoVR family protein; Provisional; Region: PRK11767 381666014618 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 381666014619 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666014620 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666014621 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666014622 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666014623 active site 381666014624 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666014625 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 381666014626 active site 2 [active] 381666014627 active site 1 [active] 381666014628 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666014629 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666014630 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 381666014631 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666014632 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 381666014633 dimerization interface [polypeptide binding]; other site 381666014634 substrate binding pocket [chemical binding]; other site 381666014635 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666014636 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 381666014637 DNA binding residues [nucleotide binding] 381666014638 dimerization interface [polypeptide binding]; other site 381666014639 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 381666014640 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 381666014641 oligomeric interface; other site 381666014642 putative active site [active] 381666014643 homodimer interface [polypeptide binding]; other site 381666014644 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 381666014645 Mechanosensitive ion channel; Region: MS_channel; pfam00924 381666014646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014647 NAD(P) binding site [chemical binding]; other site 381666014648 active site 381666014649 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666014650 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666014651 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 381666014652 acyl-activating enzyme (AAE) consensus motif; other site 381666014653 acyl-activating enzyme (AAE) consensus motif; other site 381666014654 putative AMP binding site [chemical binding]; other site 381666014655 putative active site [active] 381666014656 putative CoA binding site [chemical binding]; other site 381666014657 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666014658 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666014659 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666014660 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666014661 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 381666014662 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666014663 Walker A/P-loop; other site 381666014664 ATP binding site [chemical binding]; other site 381666014665 Q-loop/lid; other site 381666014666 ABC transporter signature motif; other site 381666014667 Walker B; other site 381666014668 D-loop; other site 381666014669 H-loop/switch region; other site 381666014670 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 381666014671 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 381666014672 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666014673 Walker A/P-loop; other site 381666014674 ATP binding site [chemical binding]; other site 381666014675 Q-loop/lid; other site 381666014676 ABC transporter signature motif; other site 381666014677 Walker B; other site 381666014678 D-loop; other site 381666014679 H-loop/switch region; other site 381666014680 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 381666014681 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 381666014682 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 381666014683 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 381666014684 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 381666014685 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 381666014686 dimer interface [polypeptide binding]; other site 381666014687 conserved gate region; other site 381666014688 putative PBP binding loops; other site 381666014689 ABC-ATPase subunit interface; other site 381666014690 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 381666014691 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 381666014692 dimer interface [polypeptide binding]; other site 381666014693 conserved gate region; other site 381666014694 putative PBP binding loops; other site 381666014695 ABC-ATPase subunit interface; other site 381666014696 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666014697 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666014698 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666014699 active site 381666014700 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666014701 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666014702 active site 381666014703 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 381666014704 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666014705 putative substrate translocation pore; other site 381666014706 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 381666014707 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 381666014708 substrate binding site [chemical binding]; other site 381666014709 oxyanion hole (OAH) forming residues; other site 381666014710 trimer interface [polypeptide binding]; other site 381666014711 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 381666014712 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666014713 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666014714 Predicted membrane protein [Function unknown]; Region: COG2323 381666014715 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666014716 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666014717 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666014718 trimer interface [polypeptide binding]; other site 381666014719 eyelet of channel; other site 381666014720 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 381666014721 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666014722 Acyl transferase domain; Region: Acyl_transf_1; cl08282 381666014723 nucleophilic elbow; other site 381666014724 catalytic triad; other site 381666014725 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 381666014726 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 381666014727 [2Fe-2S] cluster binding site [ion binding]; other site 381666014728 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 381666014729 hydrophobic ligand binding site; other site 381666014730 short chain dehydrogenase; Provisional; Region: PRK12939 381666014731 classical (c) SDRs; Region: SDR_c; cd05233 381666014732 NAD(P) binding site [chemical binding]; other site 381666014733 active site 381666014734 Cupin domain; Region: Cupin_2; pfam07883 381666014735 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666014736 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666014737 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666014738 short chain dehydrogenase; Provisional; Region: PRK07062 381666014739 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 381666014740 putative NAD(P) binding site [chemical binding]; other site 381666014741 putative active site [active] 381666014742 hypothetical protein; Provisional; Region: PRK07064 381666014743 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666014744 PYR/PP interface [polypeptide binding]; other site 381666014745 dimer interface [polypeptide binding]; other site 381666014746 TPP binding site [chemical binding]; other site 381666014747 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 381666014748 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 381666014749 TPP-binding site [chemical binding]; other site 381666014750 L-aspartate dehydrogenase; Provisional; Region: PRK13303 381666014751 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 381666014752 Domain of unknown function DUF108; Region: DUF108; pfam01958 381666014753 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666014754 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 381666014755 NAD(P) binding site [chemical binding]; other site 381666014756 catalytic residues [active] 381666014757 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 381666014758 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666014759 putative active site [active] 381666014760 putative metal binding site [ion binding]; other site 381666014761 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 381666014762 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 381666014763 FMN-binding pocket [chemical binding]; other site 381666014764 flavin binding motif; other site 381666014765 phosphate binding motif [ion binding]; other site 381666014766 beta-alpha-beta structure motif; other site 381666014767 NAD binding pocket [chemical binding]; other site 381666014768 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 381666014769 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 381666014770 catalytic loop [active] 381666014771 iron binding site [ion binding]; other site 381666014772 benzoate transport; Region: 2A0115; TIGR00895 381666014773 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 381666014774 putative substrate translocation pore; other site 381666014775 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 381666014776 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666014777 MarR family; Region: MarR_2; pfam12802 381666014778 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666014779 4-hydroxybenzoyl-CoA reductase, alpha subunit; Region: 4hydrxCoA_A; TIGR03194 381666014780 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 381666014781 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666014782 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 381666014783 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 381666014784 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666014785 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 381666014786 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666014787 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 381666014788 putative hydrophobic ligand binding site [chemical binding]; other site 381666014789 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666014790 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 381666014791 dimerization interface [polypeptide binding]; other site 381666014792 putative Zn2+ binding site [ion binding]; other site 381666014793 putative DNA binding site [nucleotide binding]; other site 381666014794 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666014795 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666014796 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666014797 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 381666014798 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666014799 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 381666014800 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666014801 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666014802 active site 381666014803 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666014804 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666014805 active site 381666014806 acyl-CoA synthetase; Provisional; Region: PRK13391 381666014807 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666014808 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 381666014809 acyl-activating enzyme (AAE) consensus motif; other site 381666014810 putative AMP binding site [chemical binding]; other site 381666014811 putative active site [active] 381666014812 acyl-activating enzyme (AAE) consensus motif; other site 381666014813 putative CoA binding site [chemical binding]; other site 381666014814 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 381666014815 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 381666014816 DNA binding residues [nucleotide binding] 381666014817 dimerization interface [polypeptide binding]; other site 381666014818 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 381666014819 putative FMN binding site [chemical binding]; other site 381666014820 enoyl-CoA hydratase; Provisional; Region: PRK08260 381666014821 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 381666014822 substrate binding site [chemical binding]; other site 381666014823 oxyanion hole (OAH) forming residues; other site 381666014824 trimer interface [polypeptide binding]; other site 381666014825 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 381666014826 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 381666014827 FMN binding site [chemical binding]; other site 381666014828 substrate binding site [chemical binding]; other site 381666014829 putative catalytic residue [active] 381666014830 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 381666014831 CoenzymeA binding site [chemical binding]; other site 381666014832 subunit interaction site [polypeptide binding]; other site 381666014833 PHB binding site; other site 381666014834 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 381666014835 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 381666014836 dimer interface [polypeptide binding]; other site 381666014837 active site 381666014838 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 381666014839 catalytic core [active] 381666014840 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 381666014841 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666014842 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 381666014843 putative effector binding pocket; other site 381666014844 putative dimerization interface [polypeptide binding]; other site 381666014845 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666014846 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 381666014847 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 381666014848 N-terminal domain interface [polypeptide binding]; other site 381666014849 dimer interface [polypeptide binding]; other site 381666014850 substrate binding pocket (H-site) [chemical binding]; other site 381666014851 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 381666014852 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 381666014853 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666014854 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 381666014855 active site 381666014856 catalytic site [active] 381666014857 substrate binding site [chemical binding]; other site 381666014858 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 381666014859 GIY-YIG motif/motif A; other site 381666014860 active site 381666014861 catalytic site [active] 381666014862 putative DNA binding site [nucleotide binding]; other site 381666014863 metal binding site [ion binding]; metal-binding site 381666014864 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 381666014865 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666014866 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 381666014867 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 381666014868 [4Fe-4S] binding site [ion binding]; other site 381666014869 molybdopterin cofactor binding site; other site 381666014870 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 381666014871 molybdopterin cofactor binding site; other site 381666014872 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 381666014873 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 381666014874 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666014875 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 381666014876 nitrite reductase subunit NirD; Provisional; Region: PRK14989 381666014877 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666014878 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 381666014879 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 381666014880 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 381666014881 Predicted transcriptional regulators [Transcription]; Region: COG1733 381666014882 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 381666014883 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666014884 Coenzyme A binding pocket [chemical binding]; other site 381666014885 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 381666014886 EamA-like transporter family; Region: EamA; pfam00892 381666014887 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 381666014888 metal binding site 2 [ion binding]; metal-binding site 381666014889 putative DNA binding helix; other site 381666014890 metal binding site 1 [ion binding]; metal-binding site 381666014891 dimer interface [polypeptide binding]; other site 381666014892 structural Zn2+ binding site [ion binding]; other site 381666014893 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 381666014894 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 381666014895 N-terminal plug; other site 381666014896 ligand-binding site [chemical binding]; other site 381666014897 Predicted membrane protein [Function unknown]; Region: COG3503 381666014898 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666014899 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 381666014900 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 381666014901 DXD motif; other site 381666014902 PilZ domain; Region: PilZ; pfam07238 381666014903 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 381666014904 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666014905 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 381666014906 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 381666014907 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 381666014908 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 381666014909 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 381666014910 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 381666014911 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 381666014912 putative active site [active] 381666014913 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 381666014914 nucleoside/Zn binding site; other site 381666014915 dimer interface [polypeptide binding]; other site 381666014916 catalytic motif [active] 381666014917 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 381666014918 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 381666014919 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 381666014920 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 381666014921 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666014922 MarR family; Region: MarR_2; cl17246 381666014923 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 381666014924 inter-subunit interface; other site 381666014925 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 381666014926 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 381666014927 iron-sulfur cluster [ion binding]; other site 381666014928 [2Fe-2S] cluster binding site [ion binding]; other site 381666014929 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 381666014930 putative alpha subunit interface [polypeptide binding]; other site 381666014931 putative active site [active] 381666014932 putative substrate binding site [chemical binding]; other site 381666014933 Fe binding site [ion binding]; other site 381666014934 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 381666014935 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666014936 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 381666014937 [2Fe-2S] cluster binding site [ion binding]; other site 381666014938 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 381666014939 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 381666014940 TM-ABC transporter signature motif; other site 381666014941 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 381666014942 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666014943 TM-ABC transporter signature motif; other site 381666014944 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666014945 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 381666014946 Walker A/P-loop; other site 381666014947 ATP binding site [chemical binding]; other site 381666014948 Q-loop/lid; other site 381666014949 ABC transporter signature motif; other site 381666014950 Walker B; other site 381666014951 D-loop; other site 381666014952 H-loop/switch region; other site 381666014953 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666014954 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 381666014955 Walker A/P-loop; other site 381666014956 ATP binding site [chemical binding]; other site 381666014957 Q-loop/lid; other site 381666014958 ABC transporter signature motif; other site 381666014959 Walker B; other site 381666014960 D-loop; other site 381666014961 H-loop/switch region; other site 381666014962 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666014963 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 381666014964 putative ligand binding site [chemical binding]; other site 381666014965 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 381666014966 putative substrate translocation pore; other site 381666014967 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 381666014968 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 381666014969 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666014970 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666014971 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 381666014972 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 381666014973 N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia. CSHase is involved in one of the two alternative pathways for creatinine degradation to glycine in microorganisms.This...; Region: CSHase; cd01015 381666014974 Isochorismatase family; Region: Isochorismatase; pfam00857 381666014975 catalytic triad [active] 381666014976 substrate binding site [chemical binding]; other site 381666014977 domain interfaces; other site 381666014978 conserved cis-peptide bond; other site 381666014979 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666014980 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 381666014981 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666014982 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 381666014983 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666014984 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 381666014985 catalytic loop [active] 381666014986 iron binding site [ion binding]; other site 381666014987 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666014988 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 381666014989 putative hydrophobic ligand binding site [chemical binding]; other site 381666014990 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 381666014991 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 381666014992 sequence-specific DNA binding site [nucleotide binding]; other site 381666014993 salt bridge; other site 381666014994 Cupin domain; Region: Cupin_2; cl17218 381666014995 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 381666014996 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 381666014997 substrate-cofactor binding pocket; other site 381666014998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666014999 catalytic residue [active] 381666015000 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 381666015001 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 381666015002 NAD binding site [chemical binding]; other site 381666015003 homodimer interface [polypeptide binding]; other site 381666015004 active site 381666015005 putative substrate binding site [chemical binding]; other site 381666015006 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 381666015007 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 381666015008 DNA binding residues [nucleotide binding] 381666015009 dimerization interface [polypeptide binding]; other site 381666015010 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666015011 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 381666015012 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 381666015013 ligand binding site [chemical binding]; other site 381666015014 NAD binding site [chemical binding]; other site 381666015015 tetramer interface [polypeptide binding]; other site 381666015016 catalytic site [active] 381666015017 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 381666015018 L-serine binding site [chemical binding]; other site 381666015019 ACT domain interface; other site 381666015020 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 381666015021 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 381666015022 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 381666015023 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666015024 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 381666015025 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 381666015026 dimerization interface [polypeptide binding]; other site 381666015027 Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP); Region: HEPD; cd08182 381666015028 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 381666015029 putative active site [active] 381666015030 metal binding site [ion binding]; metal-binding site 381666015031 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 381666015032 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 381666015033 putative substrate translocation pore; other site 381666015034 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 381666015035 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 381666015036 NAD(P) binding site [chemical binding]; other site 381666015037 catalytic residues [active] 381666015038 acetyl-CoA synthetase; Provisional; Region: PRK00174 381666015039 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 381666015040 active site 381666015041 CoA binding site [chemical binding]; other site 381666015042 acyl-activating enzyme (AAE) consensus motif; other site 381666015043 AMP binding site [chemical binding]; other site 381666015044 acetate binding site [chemical binding]; other site 381666015045 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 381666015046 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 381666015047 PhoU domain; Region: PhoU; pfam01895 381666015048 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 381666015049 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 381666015050 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666015051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666015052 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 381666015053 dimerization interface [polypeptide binding]; other site 381666015054 substrate binding pocket [chemical binding]; other site 381666015055 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666015056 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 381666015057 ligand binding site [chemical binding]; other site 381666015058 flexible hinge region; other site 381666015059 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 381666015060 putative switch regulator; other site 381666015061 non-specific DNA interactions [nucleotide binding]; other site 381666015062 DNA binding site [nucleotide binding] 381666015063 sequence specific DNA binding site [nucleotide binding]; other site 381666015064 putative cAMP binding site [chemical binding]; other site 381666015065 aldolase II superfamily protein; Provisional; Region: PRK07044 381666015066 intersubunit interface [polypeptide binding]; other site 381666015067 active site 381666015068 Zn2+ binding site [ion binding]; other site 381666015069 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 381666015070 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 381666015071 putative ligand binding site [chemical binding]; other site 381666015072 NAD binding site [chemical binding]; other site 381666015073 dimerization interface [polypeptide binding]; other site 381666015074 catalytic site [active] 381666015075 PhoD-like phosphatase; Region: PhoD; pfam09423 381666015076 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 381666015077 putative active site [active] 381666015078 putative metal binding site [ion binding]; other site 381666015079 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 381666015080 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 381666015081 Ligand Binding Site [chemical binding]; other site 381666015082 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 381666015083 Ligand Binding Site [chemical binding]; other site 381666015084 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666015085 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 381666015086 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 381666015087 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 381666015088 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666015089 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 381666015090 dimerization interface [polypeptide binding]; other site 381666015091 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666015092 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666015093 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666015094 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 381666015095 substrate binding site [chemical binding]; other site 381666015096 oxyanion hole (OAH) forming residues; other site 381666015097 trimer interface [polypeptide binding]; other site 381666015098 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666015099 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666015100 active site 381666015101 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666015102 active site 381666015103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666015104 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666015105 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666015106 eyelet of channel; other site 381666015107 trimer interface [polypeptide binding]; other site 381666015108 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 381666015109 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 381666015110 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 381666015111 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 381666015112 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 381666015113 putative hydrophobic ligand binding site [chemical binding]; other site 381666015114 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 381666015115 dimerization interface [polypeptide binding]; other site 381666015116 putative DNA binding site [nucleotide binding]; other site 381666015117 putative Zn2+ binding site [ion binding]; other site 381666015118 Cytochrome c; Region: Cytochrom_C; cl11414 381666015119 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 381666015120 sulfite oxidase; Provisional; Region: PLN00177 381666015121 Moco binding site; other site 381666015122 metal coordination site [ion binding]; other site 381666015123 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 381666015124 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 381666015125 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 381666015126 active site 381666015127 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 381666015128 Transcriptional regulators [Transcription]; Region: PurR; COG1609 381666015129 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 381666015130 DNA binding site [nucleotide binding] 381666015131 domain linker motif; other site 381666015132 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 381666015133 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666015134 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666015135 LysR substrate binding domain; Region: LysR_substrate; pfam03466 381666015136 dimerization interface [polypeptide binding]; other site 381666015137 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 381666015138 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 381666015139 Na binding site [ion binding]; other site 381666015140 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 381666015141 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 381666015142 active site 381666015143 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 381666015144 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 381666015145 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 381666015146 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 381666015147 Beta-lactamase; Region: Beta-lactamase; pfam00144 381666015148 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 381666015149 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666015150 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666015151 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 381666015152 dimerization interface [polypeptide binding]; other site 381666015153 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 381666015154 Cupin domain; Region: Cupin_2; pfam07883 381666015155 Cupin domain; Region: Cupin_2; cl17218 381666015156 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 381666015157 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 381666015158 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 381666015159 C-terminal domain interface [polypeptide binding]; other site 381666015160 GSH binding site (G-site) [chemical binding]; other site 381666015161 putative dimer interface [polypeptide binding]; other site 381666015162 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 381666015163 dimer interface [polypeptide binding]; other site 381666015164 N-terminal domain interface [polypeptide binding]; other site 381666015165 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 381666015166 salicylate hydroxylase; Provisional; Region: PRK08163 381666015167 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 381666015168 benzoate transport; Region: 2A0115; TIGR00895 381666015169 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 381666015170 putative substrate translocation pore; other site 381666015171 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 381666015172 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666015173 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666015174 DNA-binding site [nucleotide binding]; DNA binding site 381666015175 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 381666015176 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666015177 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666015178 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666015179 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 381666015180 DctM-like transporters; Region: DctM; pfam06808 381666015181 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 381666015182 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 381666015183 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 381666015184 Amidase; Region: Amidase; pfam01425 381666015185 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 381666015186 Uncharacterized conserved protein [Function unknown]; Region: COG5649 381666015187 Domain of unknown function (DU1801); Region: DUF1801; cl17490 381666015188 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 381666015189 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 381666015190 membrane-bound complex binding site; other site 381666015191 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 381666015192 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 381666015193 substrate binding pocket [chemical binding]; other site 381666015194 membrane-bound complex binding site; other site 381666015195 hinge residues; other site 381666015196 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 381666015197 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 381666015198 Walker A/P-loop; other site 381666015199 ATP binding site [chemical binding]; other site 381666015200 Q-loop/lid; other site 381666015201 ABC transporter signature motif; other site 381666015202 Walker B; other site 381666015203 D-loop; other site 381666015204 H-loop/switch region; other site 381666015205 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 381666015206 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 381666015207 dimer interface [polypeptide binding]; other site 381666015208 conserved gate region; other site 381666015209 putative PBP binding loops; other site 381666015210 ABC-ATPase subunit interface; other site 381666015211 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 381666015212 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 381666015213 dimer interface [polypeptide binding]; other site 381666015214 active site 381666015215 catalytic residue [active] 381666015216 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; pfam09694 381666015217 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 381666015218 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 381666015219 active site 381666015220 phosphorylation site [posttranslational modification] 381666015221 intermolecular recognition site; other site 381666015222 dimerization interface [polypeptide binding]; other site 381666015223 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 381666015224 DNA binding site [nucleotide binding] 381666015225 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 381666015226 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 381666015227 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 381666015228 Ligand Binding Site [chemical binding]; other site 381666015229 GAF domain; Region: GAF_3; pfam13492 381666015230 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 381666015231 dimer interface [polypeptide binding]; other site 381666015232 phosphorylation site [posttranslational modification] 381666015233 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 381666015234 ATP binding site [chemical binding]; other site 381666015235 Mg2+ binding site [ion binding]; other site 381666015236 G-X-G motif; other site 381666015237 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 381666015238 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 381666015239 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 381666015240 Soluble P-type ATPase [General function prediction only]; Region: COG4087 381666015241 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 381666015242 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666015243 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666015244 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 381666015245 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 381666015246 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666015247 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 381666015248 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 381666015249 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 381666015250 DNA binding residues [nucleotide binding] 381666015251 dimer interface [polypeptide binding]; other site 381666015252 mercury binding site [ion binding]; other site 381666015253 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 381666015254 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 381666015255 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666015256 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666015257 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666015258 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666015259 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666015260 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666015261 active site 381666015262 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666015263 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666015264 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 381666015265 acyl-activating enzyme (AAE) consensus motif; other site 381666015266 putative AMP binding site [chemical binding]; other site 381666015267 putative active site [active] 381666015268 putative CoA binding site [chemical binding]; other site 381666015269 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666015270 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666015271 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 381666015272 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666015273 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666015274 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666015275 active site 381666015276 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666015277 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666015278 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666015279 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 381666015280 substrate binding site [chemical binding]; other site 381666015281 oxyanion hole (OAH) forming residues; other site 381666015282 trimer interface [polypeptide binding]; other site 381666015283 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666015284 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666015285 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 381666015286 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 381666015287 putative acyl-acceptor binding pocket; other site 381666015288 transcriptional activator FlhC; Provisional; Region: PRK12860 381666015289 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 381666015290 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 381666015291 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666015292 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 381666015293 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 381666015294 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 381666015295 active site 381666015296 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666015297 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666015298 Uncharacterized conserved protein [Function unknown]; Region: COG5361 381666015299 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 381666015300 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 381666015301 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 381666015302 Uncharacterized conserved protein [Function unknown]; Region: COG5361 381666015303 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 381666015304 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 381666015305 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 381666015306 CoA binding domain; Region: CoA_binding_2; pfam13380 381666015307 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 381666015308 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 381666015309 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666015310 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666015311 DNA-binding site [nucleotide binding]; DNA binding site 381666015312 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 381666015313 Protein of unknown function (DUF2880); Region: DUF2880; pfam11082 381666015314 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 381666015315 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 381666015316 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 381666015317 putative active site [active] 381666015318 catalytic site [active] 381666015319 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 381666015320 putative active site [active] 381666015321 catalytic site [active] 381666015322 Uncharacterized conserved protein [Function unknown]; Region: COG0398 381666015323 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 381666015324 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 381666015325 Predicted small secreted protein [Function unknown]; Region: COG5510 381666015326 Cupin; Region: Cupin_6; pfam12852 381666015327 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666015328 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666015329 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666015330 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666015331 active site 381666015332 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 381666015333 tartronate semialdehyde reductase; Provisional; Region: PRK15059 381666015334 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 381666015335 putative dehydrogenase; Provisional; Region: PRK10098 381666015336 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 381666015337 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 381666015338 [2Fe-2S] cluster binding site [ion binding]; other site 381666015339 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 381666015340 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666015341 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666015342 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 381666015343 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 381666015344 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 381666015345 G1 box; other site 381666015346 putative GEF interaction site [polypeptide binding]; other site 381666015347 GTP/Mg2+ binding site [chemical binding]; other site 381666015348 Switch I region; other site 381666015349 G2 box; other site 381666015350 G3 box; other site 381666015351 Switch II region; other site 381666015352 G4 box; other site 381666015353 G5 box; other site 381666015354 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 381666015355 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 381666015356 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 381666015357 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 381666015358 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 381666015359 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666015360 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 381666015361 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 381666015362 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 381666015363 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 381666015364 heme-binding site [chemical binding]; other site 381666015365 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 381666015366 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666015367 Walker A/P-loop; other site 381666015368 ATP binding site [chemical binding]; other site 381666015369 Q-loop/lid; other site 381666015370 ABC transporter signature motif; other site 381666015371 Walker B; other site 381666015372 D-loop; other site 381666015373 H-loop/switch region; other site 381666015374 heme exporter protein CcmB; Region: ccmB; TIGR01190 381666015375 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 381666015376 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 381666015377 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 381666015378 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 381666015379 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 381666015380 catalytic residues [active] 381666015381 central insert; other site 381666015382 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 381666015383 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 381666015384 antiporter inner membrane protein; Provisional; Region: PRK11670 381666015385 Domain of unknown function DUF59; Region: DUF59; pfam01883 381666015386 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 381666015387 Walker A motif; other site 381666015388 pyruvate kinase; Provisional; Region: PRK06247 381666015389 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 381666015390 domain interfaces; other site 381666015391 active site 381666015392 PAS domain S-box; Region: sensory_box; TIGR00229 381666015393 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 381666015394 putative active site [active] 381666015395 heme pocket [chemical binding]; other site 381666015396 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666015397 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 381666015398 DNA binding residues [nucleotide binding] 381666015399 dimerization interface [polypeptide binding]; other site 381666015400 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666015401 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 381666015402 putative ligand binding site [chemical binding]; other site 381666015403 Putative cyclase; Region: Cyclase; pfam04199 381666015404 galactarate dehydratase; Region: galactar-dH20; TIGR03248 381666015405 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 381666015406 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 381666015407 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 381666015408 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666015409 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666015410 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666015411 putative effector binding pocket; other site 381666015412 dimerization interface [polypeptide binding]; other site 381666015413 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 381666015414 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 381666015415 dimer interface [polypeptide binding]; other site 381666015416 active site 381666015417 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 381666015418 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 381666015419 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 381666015420 active site 381666015421 dimer interface [polypeptide binding]; other site 381666015422 metal binding site [ion binding]; metal-binding site 381666015423 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 381666015424 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 381666015425 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 381666015426 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666015427 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666015428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666015429 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 381666015430 dimerization interface [polypeptide binding]; other site 381666015431 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666015432 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666015433 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666015434 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666015435 active site 381666015436 ProQ/FINO family; Region: ProQ; pfam04352 381666015437 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 381666015438 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 381666015439 potassium uptake protein; Region: kup; TIGR00794 381666015440 ribonuclease Z; Provisional; Region: PRK02126 381666015441 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 381666015442 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666015443 DNA-binding site [nucleotide binding]; DNA binding site 381666015444 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 381666015445 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666015446 homodimer interface [polypeptide binding]; other site 381666015447 catalytic residue [active] 381666015448 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 381666015449 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 381666015450 inhibitor-cofactor binding pocket; inhibition site 381666015451 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666015452 catalytic residue [active] 381666015453 succinic semialdehyde dehydrogenase; Region: PLN02278 381666015454 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 381666015455 tetramerization interface [polypeptide binding]; other site 381666015456 NAD(P) binding site [chemical binding]; other site 381666015457 catalytic residues [active] 381666015458 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666015459 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 381666015460 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 381666015461 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666015462 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666015463 enoyl-CoA hydratase; Provisional; Region: PRK05995 381666015464 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 381666015465 substrate binding site [chemical binding]; other site 381666015466 oxyanion hole (OAH) forming residues; other site 381666015467 trimer interface [polypeptide binding]; other site 381666015468 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 381666015469 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666015470 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666015471 DNA-binding site [nucleotide binding]; DNA binding site 381666015472 UTRA domain; Region: UTRA; pfam07702 381666015473 Cupin domain; Region: Cupin_2; pfam07883 381666015474 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666015475 Predicted transcriptional regulators [Transcription]; Region: COG1733 381666015476 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 381666015477 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 381666015478 active site 381666015479 homotetramer interface [polypeptide binding]; other site 381666015480 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 381666015481 active site 381666015482 homotetramer interface [polypeptide binding]; other site 381666015483 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 381666015484 D-galactonate transporter; Region: 2A0114; TIGR00893 381666015485 putative substrate translocation pore; other site 381666015486 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666015487 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666015488 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 381666015489 dimerization interface [polypeptide binding]; other site 381666015490 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 381666015491 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 381666015492 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 381666015493 CoenzymeA binding site [chemical binding]; other site 381666015494 subunit interaction site [polypeptide binding]; other site 381666015495 PHB binding site; other site 381666015496 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666015497 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666015498 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666015499 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 381666015500 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 381666015501 NADP binding site [chemical binding]; other site 381666015502 dimer interface [polypeptide binding]; other site 381666015503 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 381666015504 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666015505 substrate binding pocket [chemical binding]; other site 381666015506 active site 381666015507 iron coordination sites [ion binding]; other site 381666015508 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 381666015509 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666015510 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 381666015511 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 381666015512 PhnA protein; Region: PhnA; pfam03831 381666015513 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 381666015514 Cytochrome P450; Region: p450; pfam00067 381666015515 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 381666015516 Flavodoxin; Region: Flavodoxin_1; pfam00258 381666015517 These bifunctional proteins fuse N-terminal cytochrome p450 with a cytochrome p450 reductase (CYPOR). NADPH cytochrome p450 reductase serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine...; Region: bifunctional_CYPOR; cd06206 381666015518 FAD binding pocket [chemical binding]; other site 381666015519 FAD binding motif [chemical binding]; other site 381666015520 catalytic residues [active] 381666015521 NAD binding pocket [chemical binding]; other site 381666015522 phosphate binding motif [ion binding]; other site 381666015523 beta-alpha-beta structure motif; other site 381666015524 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 381666015525 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666015526 Cupin domain; Region: Cupin_2; pfam07883 381666015527 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 381666015528 putative substrate translocation pore; other site 381666015529 BT1 family; Region: BT1; pfam03092 381666015530 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 381666015531 proposed catalytic triad [active] 381666015532 active site nucleophile [active] 381666015533 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 381666015534 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 381666015535 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 381666015536 Citrate transporter; Region: CitMHS; pfam03600 381666015537 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 381666015538 tartrate dehydrogenase; Region: TTC; TIGR02089 381666015539 Uncharacterized conserved protein [Function unknown]; Region: COG3025 381666015540 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 381666015541 putative active site [active] 381666015542 putative metal binding residues [ion binding]; other site 381666015543 signature motif; other site 381666015544 putative triphosphate binding site [ion binding]; other site 381666015545 CHAD domain; Region: CHAD; pfam05235 381666015546 polyphosphate kinase; Provisional; Region: PRK05443 381666015547 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 381666015548 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 381666015549 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 381666015550 putative domain interface [polypeptide binding]; other site 381666015551 putative active site [active] 381666015552 catalytic site [active] 381666015553 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 381666015554 putative domain interface [polypeptide binding]; other site 381666015555 putative active site [active] 381666015556 catalytic site [active] 381666015557 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 381666015558 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 381666015559 putative active site [active] 381666015560 EamA-like transporter family; Region: EamA; pfam00892 381666015561 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 381666015562 EamA-like transporter family; Region: EamA; pfam00892 381666015563 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666015564 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 381666015565 putative substrate translocation pore; other site 381666015566 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 381666015567 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 381666015568 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 381666015569 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 381666015570 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 381666015571 D-pathway; other site 381666015572 Putative ubiquinol binding site [chemical binding]; other site 381666015573 Low-spin heme (heme b) binding site [chemical binding]; other site 381666015574 Putative water exit pathway; other site 381666015575 Binuclear center (heme o3/CuB) [ion binding]; other site 381666015576 K-pathway; other site 381666015577 Putative proton exit pathway; other site 381666015578 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 381666015579 Subunit I/III interface [polypeptide binding]; other site 381666015580 Subunit III/IV interface [polypeptide binding]; other site 381666015581 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 381666015582 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666015583 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 381666015584 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 381666015585 NADP binding site [chemical binding]; other site 381666015586 dimer interface [polypeptide binding]; other site 381666015587 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 381666015588 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666015589 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 381666015590 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666015591 active site 381666015592 iron coordination sites [ion binding]; other site 381666015593 substrate binding pocket [chemical binding]; other site 381666015594 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666015595 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666015596 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666015597 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666015598 FCD domain; Region: FCD; pfam07729 381666015599 flagellar capping protein; Validated; Region: fliD; PRK08724 381666015600 PAS domain; Region: PAS_9; pfam13426 381666015601 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 381666015602 putative active site [active] 381666015603 heme pocket [chemical binding]; other site 381666015604 HAMP domain; Region: HAMP; pfam00672 381666015605 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 381666015606 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666015607 dimer interface [polypeptide binding]; other site 381666015608 putative CheW interface [polypeptide binding]; other site 381666015609 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 381666015610 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 381666015611 N-terminal plug; other site 381666015612 ligand-binding site [chemical binding]; other site 381666015613 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666015614 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 381666015615 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666015616 Walker A/P-loop; other site 381666015617 ATP binding site [chemical binding]; other site 381666015618 Q-loop/lid; other site 381666015619 ABC transporter signature motif; other site 381666015620 Walker B; other site 381666015621 D-loop; other site 381666015622 H-loop/switch region; other site 381666015623 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 381666015624 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 381666015625 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 381666015626 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 381666015627 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 381666015628 ABC transporter, substrate binding protein, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_bind; TIGR03863 381666015629 ABC-2 type transporter; Region: ABC2_membrane; cl17235 381666015630 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 381666015631 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 381666015632 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 381666015633 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 381666015634 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 381666015635 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 381666015636 dimer interface [polypeptide binding]; other site 381666015637 Trp docking motif [polypeptide binding]; other site 381666015638 active site 381666015639 Cytochrome c; Region: Cytochrom_C; cl11414 381666015640 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 381666015641 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 381666015642 FeS/SAM binding site; other site 381666015643 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 381666015644 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 381666015645 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 381666015646 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 381666015647 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 381666015648 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 381666015649 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 381666015650 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 381666015651 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 381666015652 Walker A motif; other site 381666015653 ATP binding site [chemical binding]; other site 381666015654 Walker B motif; other site 381666015655 arginine finger; other site 381666015656 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 381666015657 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 381666015658 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666015659 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 381666015660 substrate binding pocket [chemical binding]; other site 381666015661 membrane-bound complex binding site; other site 381666015662 hinge residues; other site 381666015663 HipA N-terminal domain; Region: Couple_hipA; pfam13657 381666015664 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 381666015665 HipA-like N-terminal domain; Region: HipA_N; pfam07805 381666015666 HipA-like C-terminal domain; Region: HipA_C; pfam07804 381666015667 DNA Polymerase Y-family; Region: PolY_like; cd03468 381666015668 active site 381666015669 DNA binding site [nucleotide binding] 381666015670 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 381666015671 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 381666015672 active site 381666015673 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 381666015674 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 381666015675 generic binding surface II; other site 381666015676 generic binding surface I; other site 381666015677 Survival protein SurE; Region: SurE; pfam01975 381666015678 XAP5, circadian clock regulator; Region: XAP5; pfam04921 381666015679 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 381666015680 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 381666015681 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 381666015682 putative active site [active] 381666015683 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 381666015684 Phosphoesterase family; Region: Phosphoesterase; pfam04185 381666015685 Domain of unknown function (DUF756); Region: DUF756; pfam05506 381666015686 Domain of unknown function (DUF756); Region: DUF756; pfam05506 381666015687 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 381666015688 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666015689 hypothetical protein; Provisional; Region: PRK10621 381666015690 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 381666015691 Cupin domain; Region: Cupin_2; pfam07883 381666015692 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 381666015693 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666015694 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666015695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666015696 NAD(P) binding site [chemical binding]; other site 381666015697 active site 381666015698 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 381666015699 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 381666015700 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666015701 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666015702 trimer interface [polypeptide binding]; other site 381666015703 eyelet of channel; other site 381666015704 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666015705 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 381666015706 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666015707 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666015708 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 381666015709 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 381666015710 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666015711 homodimer interface [polypeptide binding]; other site 381666015712 catalytic residue [active] 381666015713 aromatic amino acid transporter; Provisional; Region: PRK10238 381666015714 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 381666015715 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 381666015716 dimer interface [polypeptide binding]; other site 381666015717 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 381666015718 active site 381666015719 Fe binding site [ion binding]; other site 381666015720 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666015721 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 381666015722 putative DNA binding site [nucleotide binding]; other site 381666015723 putative Zn2+ binding site [ion binding]; other site 381666015724 AsnC family; Region: AsnC_trans_reg; pfam01037 381666015725 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 381666015726 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 381666015727 putative active site [active] 381666015728 heme pocket [chemical binding]; other site 381666015729 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 381666015730 dimer interface [polypeptide binding]; other site 381666015731 phosphorylation site [posttranslational modification] 381666015732 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 381666015733 ATP binding site [chemical binding]; other site 381666015734 Mg2+ binding site [ion binding]; other site 381666015735 G-X-G motif; other site 381666015736 Response regulator receiver domain; Region: Response_reg; pfam00072 381666015737 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 381666015738 active site 381666015739 phosphorylation site [posttranslational modification] 381666015740 intermolecular recognition site; other site 381666015741 dimerization interface [polypeptide binding]; other site 381666015742 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666015743 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 381666015744 active site 381666015745 phosphorylation site [posttranslational modification] 381666015746 intermolecular recognition site; other site 381666015747 dimerization interface [polypeptide binding]; other site 381666015748 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 381666015749 DNA binding residues [nucleotide binding] 381666015750 dimerization interface [polypeptide binding]; other site 381666015751 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666015752 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666015753 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 381666015754 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 381666015755 active site 381666015756 nucleophile elbow; other site 381666015757 hypothetical protein; Provisional; Region: PRK11239 381666015758 Protein of unknown function, DUF480; Region: DUF480; pfam04337 381666015759 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666015760 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 381666015761 ligand binding site [chemical binding]; other site 381666015762 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 381666015763 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666015764 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666015765 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 381666015766 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 381666015767 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666015768 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666015769 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 381666015770 DNA binding site [nucleotide binding] 381666015771 active site 381666015772 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 381666015773 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 381666015774 SnoaL-like domain; Region: SnoaL_2; pfam12680 381666015775 hypothetical protein; Provisional; Region: PRK06156 381666015776 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 381666015777 metal binding site [ion binding]; metal-binding site 381666015778 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 381666015779 catalytic triad [active] 381666015780 dimer interface [polypeptide binding]; other site 381666015781 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 381666015782 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 381666015783 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 381666015784 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666015785 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666015786 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 381666015787 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 381666015788 N-terminal plug; other site 381666015789 ligand-binding site [chemical binding]; other site 381666015790 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 381666015791 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 381666015792 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666015793 acyl-activating enzyme (AAE) consensus motif; other site 381666015794 AMP binding site [chemical binding]; other site 381666015795 active site 381666015796 CoA binding site [chemical binding]; other site 381666015797 BON domain; Region: BON; pfam04972 381666015798 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 381666015799 BON domain; Region: BON; pfam04972 381666015800 BON domain; Region: BON; pfam04972 381666015801 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 381666015802 conserved cys residue [active] 381666015803 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 381666015804 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666015805 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 381666015806 hypothetical protein; Provisional; Region: PRK07338 381666015807 metal binding site [ion binding]; metal-binding site 381666015808 dimer interface [polypeptide binding]; other site 381666015809 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 381666015810 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 381666015811 putative active site [active] 381666015812 catalytic site [active] 381666015813 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 381666015814 putative active site [active] 381666015815 catalytic site [active] 381666015816 NMT1/THI5 like; Region: NMT1; pfam09084 381666015817 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 381666015818 oxidase reductase; Provisional; Region: PTZ00273 381666015819 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 381666015820 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 381666015821 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 381666015822 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 381666015823 E-class dimer interface [polypeptide binding]; other site 381666015824 P-class dimer interface [polypeptide binding]; other site 381666015825 active site 381666015826 Cu2+ binding site [ion binding]; other site 381666015827 Zn2+ binding site [ion binding]; other site 381666015828 transcriptional regulator; Provisional; Region: PRK10632 381666015829 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666015830 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 381666015831 putative effector binding pocket; other site 381666015832 putative dimerization interface [polypeptide binding]; other site 381666015833 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 381666015834 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666015835 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666015836 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666015837 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 381666015838 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666015839 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 381666015840 hydrophobic ligand binding site; other site 381666015841 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 381666015842 substrate binding site [chemical binding]; other site 381666015843 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 381666015844 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 381666015845 generic binding surface I; other site 381666015846 generic binding surface II; other site 381666015847 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 381666015848 putative catalytic site [active] 381666015849 putative metal binding site [ion binding]; other site 381666015850 putative phosphate binding site [ion binding]; other site 381666015851 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 381666015852 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 381666015853 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 381666015854 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 381666015855 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 381666015856 active site 381666015857 putative substrate binding pocket [chemical binding]; other site 381666015858 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 381666015859 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 381666015860 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666015861 Walker A/P-loop; other site 381666015862 ATP binding site [chemical binding]; other site 381666015863 Q-loop/lid; other site 381666015864 ABC transporter signature motif; other site 381666015865 Walker B; other site 381666015866 D-loop; other site 381666015867 H-loop/switch region; other site 381666015868 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666015869 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 381666015870 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666015871 Walker A/P-loop; other site 381666015872 ATP binding site [chemical binding]; other site 381666015873 Q-loop/lid; other site 381666015874 ABC transporter signature motif; other site 381666015875 Walker B; other site 381666015876 D-loop; other site 381666015877 H-loop/switch region; other site 381666015878 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666015879 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 381666015880 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 381666015881 dimer interface [polypeptide binding]; other site 381666015882 conserved gate region; other site 381666015883 putative PBP binding loops; other site 381666015884 ABC-ATPase subunit interface; other site 381666015885 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 381666015886 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 381666015887 dimer interface [polypeptide binding]; other site 381666015888 conserved gate region; other site 381666015889 putative PBP binding loops; other site 381666015890 ABC-ATPase subunit interface; other site 381666015891 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 381666015892 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 381666015893 Uncharacterized conserved protein [Function unknown]; Region: COG5476 381666015894 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 381666015895 MlrC C-terminus; Region: MlrC_C; pfam07171 381666015896 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 381666015897 hydroxyglutarate oxidase; Provisional; Region: PRK11728 381666015898 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 381666015899 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 381666015900 non-specific DNA binding site [nucleotide binding]; other site 381666015901 salt bridge; other site 381666015902 sequence-specific DNA binding site [nucleotide binding]; other site 381666015903 Cupin domain; Region: Cupin_2; pfam07883 381666015904 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 381666015905 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 381666015906 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 381666015907 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 381666015908 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 381666015909 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 381666015910 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 381666015911 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 381666015912 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 381666015913 hypothetical protein; Provisional; Region: PRK08126 381666015914 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 381666015915 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666015916 ligand binding site [chemical binding]; other site 381666015917 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666015918 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 381666015919 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666015920 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666015921 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 381666015922 classical (c) SDRs; Region: SDR_c; cd05233 381666015923 NAD(P) binding site [chemical binding]; other site 381666015924 active site 381666015925 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 381666015926 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666015927 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 381666015928 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 381666015929 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 381666015930 active site 381666015931 FMN binding site [chemical binding]; other site 381666015932 substrate binding site [chemical binding]; other site 381666015933 homotetramer interface [polypeptide binding]; other site 381666015934 catalytic residue [active] 381666015935 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666015936 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 381666015937 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666015938 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 381666015939 ligand binding site [chemical binding]; other site 381666015940 flexible hinge region; other site 381666015941 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 381666015942 non-specific DNA interactions [nucleotide binding]; other site 381666015943 DNA binding site [nucleotide binding] 381666015944 sequence specific DNA binding site [nucleotide binding]; other site 381666015945 putative cAMP binding site [chemical binding]; other site 381666015946 acyl-CoA synthetase; Validated; Region: PRK08162 381666015947 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 381666015948 acyl-activating enzyme (AAE) consensus motif; other site 381666015949 putative active site [active] 381666015950 AMP binding site [chemical binding]; other site 381666015951 putative CoA binding site [chemical binding]; other site 381666015952 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 381666015953 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 381666015954 putative active cleft [active] 381666015955 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 381666015956 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 381666015957 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666015958 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666015959 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666015960 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666015961 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666015962 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 381666015963 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 381666015964 putative active site [active] 381666015965 Zn binding site [ion binding]; other site 381666015966 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 381666015967 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 381666015968 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666015969 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 381666015970 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 381666015971 dimerization interface [polypeptide binding]; other site 381666015972 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 381666015973 Phosphoesterase family; Region: Phosphoesterase; pfam04185 381666015974 Domain of unknown function (DUF756); Region: DUF756; pfam05506 381666015975 Domain of unknown function (DUF756); Region: DUF756; pfam05506 381666015976 Uncharacterized conserved protein [Function unknown]; Region: COG3379 381666015977 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 381666015978 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666015979 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666015980 DNA-binding site [nucleotide binding]; DNA binding site 381666015981 FCD domain; Region: FCD; pfam07729 381666015982 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 381666015983 homodimer interface [polypeptide binding]; other site 381666015984 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666015985 catalytic residue [active] 381666015986 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 381666015987 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 381666015988 putative substrate translocation pore; other site 381666015989 amidase; Provisional; Region: PRK08137 381666015990 Amidase; Region: Amidase; cl11426 381666015991 Amidase; Region: Amidase; cl11426 381666015992 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 381666015993 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666015994 putative substrate translocation pore; other site 381666015995 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 381666015996 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 381666015997 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 381666015998 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 381666015999 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 381666016000 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 381666016001 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 381666016002 tetramerization interface [polypeptide binding]; other site 381666016003 NAD(P) binding site [chemical binding]; other site 381666016004 catalytic residues [active] 381666016005 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 381666016006 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666016007 FAD binding domain; Region: FAD_binding_4; pfam01565 381666016008 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 381666016009 Predicted transcriptional regulators [Transcription]; Region: COG1695 381666016010 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 381666016011 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 381666016012 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 381666016013 FAD binding pocket [chemical binding]; other site 381666016014 FAD binding motif [chemical binding]; other site 381666016015 phosphate binding motif [ion binding]; other site 381666016016 NAD binding pocket [chemical binding]; other site 381666016017 aminotransferase; Validated; Region: PRK08175 381666016018 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 381666016019 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666016020 homodimer interface [polypeptide binding]; other site 381666016021 catalytic residue [active] 381666016022 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666016023 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 381666016024 ligand binding site [chemical binding]; other site 381666016025 flexible hinge region; other site 381666016026 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 381666016027 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 381666016028 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 381666016029 substrate binding site [chemical binding]; other site 381666016030 oxyanion hole (OAH) forming residues; other site 381666016031 trimer interface [polypeptide binding]; other site 381666016032 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 381666016033 enoyl-CoA hydratase; Provisional; Region: PRK09076 381666016034 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 381666016035 substrate binding site [chemical binding]; other site 381666016036 oxyanion hole (OAH) forming residues; other site 381666016037 trimer interface [polypeptide binding]; other site 381666016038 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 381666016039 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 381666016040 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 381666016041 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 381666016042 tetrameric interface [polypeptide binding]; other site 381666016043 NAD binding site [chemical binding]; other site 381666016044 catalytic residues [active] 381666016045 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666016046 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666016047 active site 381666016048 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666016049 Helix-turn-helix domain; Region: HTH_18; pfam12833 381666016050 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666016051 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 381666016052 S-formylglutathione hydrolase; Region: PLN02442 381666016053 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 381666016054 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 381666016055 substrate binding site [chemical binding]; other site 381666016056 catalytic Zn binding site [ion binding]; other site 381666016057 NAD binding site [chemical binding]; other site 381666016058 structural Zn binding site [ion binding]; other site 381666016059 dimer interface [polypeptide binding]; other site 381666016060 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 381666016061 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666016062 FAD binding domain; Region: FAD_binding_4; pfam01565 381666016063 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 381666016064 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 381666016065 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 381666016066 nucleotide binding site [chemical binding]; other site 381666016067 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 381666016068 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 381666016069 putative substrate translocation pore; other site 381666016070 TLC ATP/ADP transporter; Region: TLC; cl03940 381666016071 TLC ATP/ADP transporter; Region: TLC; cl03940 381666016072 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 381666016073 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 381666016074 active site 381666016075 catalytic tetrad [active] 381666016076 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: VapC; COG1487 381666016077 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 381666016078 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 381666016079 GntP family permease; Region: GntP_permease; pfam02447 381666016080 fructuronate transporter; Provisional; Region: PRK10034; cl15264 381666016081 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 381666016082 homotrimer interaction site [polypeptide binding]; other site 381666016083 putative active site [active] 381666016084 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 381666016085 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 381666016086 active site 381666016087 putative substrate binding pocket [chemical binding]; other site 381666016088 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 381666016089 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 381666016090 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 381666016091 putative active site [active] 381666016092 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 381666016093 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 381666016094 dimer interface [polypeptide binding]; other site 381666016095 active site 381666016096 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 381666016097 substrate binding site [chemical binding]; other site 381666016098 catalytic residue [active] 381666016099 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 381666016100 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 381666016101 substrate binding site [chemical binding]; other site 381666016102 ATP binding site [chemical binding]; other site 381666016103 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 381666016104 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 381666016105 active site 381666016106 intersubunit interface [polypeptide binding]; other site 381666016107 catalytic residue [active] 381666016108 Predicted small secreted protein [Function unknown]; Region: COG5510 381666016109 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666016110 I-site; other site 381666016111 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 381666016112 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 381666016113 Domain of unknown function DUF21; Region: DUF21; pfam01595 381666016114 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 381666016115 Transporter associated domain; Region: CorC_HlyC; smart01091 381666016116 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 381666016117 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 381666016118 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 381666016119 D-galactonate transporter; Region: 2A0114; TIGR00893 381666016120 putative substrate translocation pore; other site 381666016121 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 381666016122 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 381666016123 Amidohydrolase; Region: Amidohydro_2; pfam04909 381666016124 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666016125 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666016126 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 381666016127 putative dimerization interface [polypeptide binding]; other site 381666016128 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 381666016129 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 381666016130 non-specific DNA binding site [nucleotide binding]; other site 381666016131 salt bridge; other site 381666016132 sequence-specific DNA binding site [nucleotide binding]; other site 381666016133 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 381666016134 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 381666016135 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 381666016136 Mechanosensitive ion channel; Region: MS_channel; pfam00924 381666016137 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 381666016138 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 381666016139 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 381666016140 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 381666016141 Ligand binding site; other site 381666016142 DXD motif; other site 381666016143 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 381666016144 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 381666016145 putative substrate translocation pore; other site 381666016146 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 381666016147 Mechanosensitive ion channel; Region: MS_channel; pfam00924 381666016148 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 381666016149 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 381666016150 IHF dimer interface [polypeptide binding]; other site 381666016151 IHF - DNA interface [nucleotide binding]; other site 381666016152 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 381666016153 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 381666016154 CreA protein; Region: CreA; pfam05981 381666016155 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 381666016156 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 381666016157 active site 381666016158 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 381666016159 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666016160 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 381666016161 acyl-activating enzyme (AAE) consensus motif; other site 381666016162 putative AMP binding site [chemical binding]; other site 381666016163 putative active site [active] 381666016164 putative CoA binding site [chemical binding]; other site 381666016165 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 381666016166 classical (c) SDRs; Region: SDR_c; cd05233 381666016167 NAD(P) binding site [chemical binding]; other site 381666016168 active site 381666016169 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 381666016170 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666016171 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 381666016172 ligand binding site [chemical binding]; other site 381666016173 flexible hinge region; other site 381666016174 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 381666016175 Predicted membrane protein [Function unknown]; Region: COG4539 381666016176 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 381666016177 ATP binding site [chemical binding]; other site 381666016178 Mg2+ binding site [ion binding]; other site 381666016179 G-X-G motif; other site 381666016180 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666016181 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 381666016182 active site 381666016183 phosphorylation site [posttranslational modification] 381666016184 intermolecular recognition site; other site 381666016185 dimerization interface [polypeptide binding]; other site 381666016186 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 381666016187 DNA binding site [nucleotide binding] 381666016188 Predicted membrane protein [Function unknown]; Region: COG3212 381666016189 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 381666016190 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 381666016191 IHF dimer interface [polypeptide binding]; other site 381666016192 IHF - DNA interface [nucleotide binding]; other site 381666016193 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 381666016194 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 381666016195 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 381666016196 putative substrate binding pocket [chemical binding]; other site 381666016197 trimer interface [polypeptide binding]; other site 381666016198 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 381666016199 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666016200 dimer interface [polypeptide binding]; other site 381666016201 putative CheW interface [polypeptide binding]; other site 381666016202 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 381666016203 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 381666016204 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 381666016205 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666016206 metal binding site [ion binding]; metal-binding site 381666016207 active site 381666016208 I-site; other site 381666016209 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666016210 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 381666016211 active site 381666016212 phosphorylation site [posttranslational modification] 381666016213 intermolecular recognition site; other site 381666016214 dimerization interface [polypeptide binding]; other site 381666016215 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 381666016216 DNA binding site [nucleotide binding] 381666016217 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 381666016218 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 381666016219 putative active site [active] 381666016220 catalytic site [active] 381666016221 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 381666016222 putative active site [active] 381666016223 catalytic site [active] 381666016224 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666016225 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666016226 WHG domain; Region: WHG; pfam13305 381666016227 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 381666016228 active site 381666016229 DNA binding site [nucleotide binding] 381666016230 Int/Topo IB signature motif; other site 381666016231 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 381666016232 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 381666016233 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 381666016234 RES domain; Region: RES; pfam08808 381666016235 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666016236 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666016237 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 381666016238 acyl-activating enzyme (AAE) consensus motif; other site 381666016239 acyl-activating enzyme (AAE) consensus motif; other site 381666016240 putative AMP binding site [chemical binding]; other site 381666016241 putative active site [active] 381666016242 putative CoA binding site [chemical binding]; other site 381666016243 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 381666016244 DEAD_2; Region: DEAD_2; pfam06733 381666016245 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 381666016246 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 381666016247 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 381666016248 catalytic residues [active] 381666016249 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666016250 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 381666016251 putative metal binding site [ion binding]; other site 381666016252 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666016253 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666016254 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 381666016255 putative dimerization interface [polypeptide binding]; other site 381666016256 Cupin domain; Region: Cupin_2; cl17218 381666016257 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 381666016258 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 381666016259 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666016260 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666016261 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 381666016262 Fusaric acid resistance protein family; Region: FUSC; pfam04632 381666016263 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 381666016264 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666016265 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666016266 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 381666016267 putative dimerization interface [polypeptide binding]; other site 381666016268 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 381666016269 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666016270 Coenzyme A binding pocket [chemical binding]; other site 381666016271 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 381666016272 Cytochrome P450; Region: p450; cl12078 381666016273 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 381666016274 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 381666016275 FMN-binding pocket [chemical binding]; other site 381666016276 flavin binding motif; other site 381666016277 phosphate binding motif [ion binding]; other site 381666016278 beta-alpha-beta structure motif; other site 381666016279 NAD binding pocket [chemical binding]; other site 381666016280 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 381666016281 catalytic loop [active] 381666016282 iron binding site [ion binding]; other site 381666016283 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666016284 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666016285 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666016286 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666016287 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 381666016288 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 381666016289 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 381666016290 active site 381666016291 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 381666016292 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666016293 Walker A/P-loop; other site 381666016294 ATP binding site [chemical binding]; other site 381666016295 Q-loop/lid; other site 381666016296 ABC transporter signature motif; other site 381666016297 Walker B; other site 381666016298 D-loop; other site 381666016299 H-loop/switch region; other site 381666016300 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 381666016301 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666016302 Walker A/P-loop; other site 381666016303 ATP binding site [chemical binding]; other site 381666016304 Q-loop/lid; other site 381666016305 ABC transporter signature motif; other site 381666016306 Walker B; other site 381666016307 D-loop; other site 381666016308 H-loop/switch region; other site 381666016309 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666016310 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 381666016311 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 381666016312 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 381666016313 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 381666016314 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 381666016315 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666016316 DNA-binding site [nucleotide binding]; DNA binding site 381666016317 UTRA domain; Region: UTRA; pfam07702 381666016318 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 381666016319 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 381666016320 AAA domain; Region: AAA_18; pfam13238 381666016321 active site 381666016322 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666016323 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 381666016324 Zn2+ binding site [ion binding]; other site 381666016325 Mg2+ binding site [ion binding]; other site 381666016326 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 381666016327 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 381666016328 dimer interface [polypeptide binding]; other site 381666016329 conserved gate region; other site 381666016330 putative PBP binding loops; other site 381666016331 ABC-ATPase subunit interface; other site 381666016332 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 381666016333 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 381666016334 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 381666016335 Walker A/P-loop; other site 381666016336 ATP binding site [chemical binding]; other site 381666016337 Q-loop/lid; other site 381666016338 ABC transporter signature motif; other site 381666016339 Walker B; other site 381666016340 D-loop; other site 381666016341 H-loop/switch region; other site 381666016342 short chain dehydrogenase; Provisional; Region: PRK07478 381666016343 classical (c) SDRs; Region: SDR_c; cd05233 381666016344 NAD(P) binding site [chemical binding]; other site 381666016345 active site 381666016346 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666016347 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666016348 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666016349 putative effector binding pocket; other site 381666016350 dimerization interface [polypeptide binding]; other site 381666016351 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666016352 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 381666016353 putative DNA binding site [nucleotide binding]; other site 381666016354 putative Zn2+ binding site [ion binding]; other site 381666016355 AsnC family; Region: AsnC_trans_reg; pfam01037 381666016356 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 381666016357 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 381666016358 dimer interface [polypeptide binding]; other site 381666016359 TPP-binding site [chemical binding]; other site 381666016360 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 381666016361 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 381666016362 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 381666016363 Domain of unknown function (DUF305); Region: DUF305; pfam03713 381666016364 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 381666016365 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 381666016366 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 381666016367 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 381666016368 Chromate transporter; Region: Chromate_transp; pfam02417 381666016369 indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family; Region: indol_phenyl_DC; TIGR03394 381666016370 Sec24-related protein; Provisional; Region: PTZ00395 381666016371 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 381666016372 catalytic residue [active] 381666016373 Domain of unknown function DUF87; Region: DUF87; pfam01935 381666016374 Helix-turn-helix; Region: HTH_3; pfam01381 381666016375 sequence-specific DNA binding site [nucleotide binding]; other site 381666016376 salt bridge; other site 381666016377 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666016378 active site 381666016379 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 381666016380 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 381666016381 putative active site [active] 381666016382 putative substrate binding site [chemical binding]; other site 381666016383 ATP binding site [chemical binding]; other site 381666016384 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666016385 classical (c) SDRs; Region: SDR_c; cd05233 381666016386 NAD(P) binding site [chemical binding]; other site 381666016387 active site 381666016388 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666016389 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 381666016390 dimer interface [polypeptide binding]; other site 381666016391 acyl-activating enzyme (AAE) consensus motif; other site 381666016392 putative active site [active] 381666016393 AMP binding site [chemical binding]; other site 381666016394 putative CoA binding site [chemical binding]; other site 381666016395 Protein of unknown function, DUF485; Region: DUF485; pfam04341 381666016396 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 381666016397 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 381666016398 Na binding site [ion binding]; other site 381666016399 SnoaL-like domain; Region: SnoaL_2; pfam12680 381666016400 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666016401 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666016402 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 381666016403 dimerization interface [polypeptide binding]; other site 381666016404 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 381666016405 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 381666016406 NAD(P) binding site [chemical binding]; other site 381666016407 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 381666016408 AAA ATPase domain; Region: AAA_16; pfam13191 381666016409 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 381666016410 DNA binding residues [nucleotide binding] 381666016411 dimerization interface [polypeptide binding]; other site 381666016412 short chain dehydrogenase; Provisional; Region: PRK09291 381666016413 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 381666016414 NADP binding site [chemical binding]; other site 381666016415 active site 381666016416 steroid binding site; other site 381666016417 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666016418 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 381666016419 substrate binding site [chemical binding]; other site 381666016420 oxyanion hole (OAH) forming residues; other site 381666016421 trimer interface [polypeptide binding]; other site 381666016422 chaperone protein HchA; Provisional; Region: PRK04155 381666016423 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 381666016424 conserved cys residue [active] 381666016425 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 381666016426 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 381666016427 Family description; Region: VCBS; pfam13517 381666016428 Family description; Region: VCBS; pfam13517 381666016429 Family description; Region: VCBS; pfam13517 381666016430 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 381666016431 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 381666016432 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 381666016433 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 381666016434 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 381666016435 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 381666016436 Na binding site [ion binding]; other site 381666016437 Protein of unknown function, DUF485; Region: DUF485; pfam04341 381666016438 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 381666016439 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 381666016440 active site 381666016441 AMP binding site [chemical binding]; other site 381666016442 homodimer interface [polypeptide binding]; other site 381666016443 acyl-activating enzyme (AAE) consensus motif; other site 381666016444 CoA binding site [chemical binding]; other site 381666016445 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 381666016446 Phenylacetic acid degradation proteins PaaZ (Escherichia coli) and PaaN (Pseudomonas putida)-like; Region: ALDH_PAD-PaaZ; cd07127 381666016447 NADP binding site [chemical binding]; other site 381666016448 catalytic residues [active] 381666016449 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 381666016450 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 381666016451 FAD binding pocket [chemical binding]; other site 381666016452 FAD binding motif [chemical binding]; other site 381666016453 phosphate binding motif [ion binding]; other site 381666016454 beta-alpha-beta structure motif; other site 381666016455 NAD(p) ribose binding residues [chemical binding]; other site 381666016456 NAD binding pocket [chemical binding]; other site 381666016457 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 381666016458 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 381666016459 catalytic loop [active] 381666016460 iron binding site [ion binding]; other site 381666016461 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 381666016462 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 381666016463 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 381666016464 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 381666016465 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 381666016466 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 381666016467 PaaX-like protein; Region: PaaX; pfam07848 381666016468 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 381666016469 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 381666016470 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 381666016471 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 381666016472 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666016473 catalytic residue [active] 381666016474 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 381666016475 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 381666016476 putative DNA binding site [nucleotide binding]; other site 381666016477 putative Zn2+ binding site [ion binding]; other site 381666016478 AsnC family; Region: AsnC_trans_reg; pfam01037 381666016479 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666016480 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666016481 active site 381666016482 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 381666016483 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 381666016484 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 381666016485 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 381666016486 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 381666016487 dimer interface [polypeptide binding]; other site 381666016488 active site 381666016489 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666016490 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666016491 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666016492 active site 381666016493 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666016494 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666016495 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 381666016496 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666016497 acyl-activating enzyme (AAE) consensus motif; other site 381666016498 AMP binding site [chemical binding]; other site 381666016499 active site 381666016500 CoA binding site [chemical binding]; other site 381666016501 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666016502 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666016503 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 381666016504 putative dimerization interface [polypeptide binding]; other site 381666016505 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666016506 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666016507 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666016508 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 381666016509 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666016510 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666016511 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 381666016512 catalytic loop [active] 381666016513 iron binding site [ion binding]; other site 381666016514 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666016515 cyclase homology domain; Region: CHD; cd07302 381666016516 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 381666016517 nucleotidyl binding site; other site 381666016518 metal binding site [ion binding]; metal-binding site 381666016519 dimer interface [polypeptide binding]; other site 381666016520 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 381666016521 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 381666016522 phosphopeptide binding site; other site 381666016523 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 381666016524 Clp amino terminal domain; Region: Clp_N; pfam02861 381666016525 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 381666016526 Walker A motif; other site 381666016527 ATP binding site [chemical binding]; other site 381666016528 Walker B motif; other site 381666016529 arginine finger; other site 381666016530 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 381666016531 Walker A motif; other site 381666016532 ATP binding site [chemical binding]; other site 381666016533 Walker B motif; other site 381666016534 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 381666016535 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 381666016536 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 381666016537 putative molybdopterin cofactor binding site [chemical binding]; other site 381666016538 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 381666016539 putative molybdopterin cofactor binding site; other site 381666016540 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 381666016541 intersubunit interface [polypeptide binding]; other site 381666016542 active site 381666016543 zinc binding site [ion binding]; other site 381666016544 Na+ binding site [ion binding]; other site 381666016545 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 381666016546 Phosphoglycerate kinase; Region: PGK; pfam00162 381666016547 substrate binding site [chemical binding]; other site 381666016548 hinge regions; other site 381666016549 ADP binding site [chemical binding]; other site 381666016550 catalytic site [active] 381666016551 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 381666016552 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 381666016553 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 381666016554 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 381666016555 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 381666016556 motif II; other site 381666016557 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 381666016558 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 381666016559 TPP-binding site [chemical binding]; other site 381666016560 dimer interface [polypeptide binding]; other site 381666016561 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 381666016562 PYR/PP interface [polypeptide binding]; other site 381666016563 dimer interface [polypeptide binding]; other site 381666016564 TPP binding site [chemical binding]; other site 381666016565 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 381666016566 phosphoribulokinase; Provisional; Region: PRK15453 381666016567 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 381666016568 AMP binding site [chemical binding]; other site 381666016569 metal binding site [ion binding]; metal-binding site 381666016570 active site 381666016571 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 381666016572 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 381666016573 substrate binding site [chemical binding]; other site 381666016574 hexamer interface [polypeptide binding]; other site 381666016575 metal binding site [ion binding]; metal-binding site 381666016576 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 381666016577 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 381666016578 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 381666016579 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 381666016580 Walker A motif; other site 381666016581 ATP binding site [chemical binding]; other site 381666016582 Walker B motif; other site 381666016583 arginine finger; other site 381666016584 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 381666016585 multimerization interface [polypeptide binding]; other site 381666016586 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 381666016587 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 381666016588 homodimer interface [polypeptide binding]; other site 381666016589 active site 381666016590 heterodimer interface [polypeptide binding]; other site 381666016591 catalytic residue [active] 381666016592 metal binding site [ion binding]; metal-binding site 381666016593 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666016594 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666016595 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 381666016596 putative dimerization interface [polypeptide binding]; other site 381666016597 AMP-binding domain protein; Validated; Region: PRK07529 381666016598 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666016599 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 381666016600 acyl-activating enzyme (AAE) consensus motif; other site 381666016601 putative AMP binding site [chemical binding]; other site 381666016602 putative active site [active] 381666016603 putative CoA binding site [chemical binding]; other site 381666016604 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 381666016605 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 381666016606 dimer interface [polypeptide binding]; other site 381666016607 PYR/PP interface [polypeptide binding]; other site 381666016608 TPP binding site [chemical binding]; other site 381666016609 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 381666016610 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 381666016611 TPP-binding site [chemical binding]; other site 381666016612 dimer interface [polypeptide binding]; other site 381666016613 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666016614 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 381666016615 ligand binding site [chemical binding]; other site 381666016616 flexible hinge region; other site 381666016617 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 381666016618 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 381666016619 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 381666016620 putative substrate translocation pore; other site 381666016621 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 381666016622 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 381666016623 Cupin domain; Region: Cupin_2; pfam07883 381666016624 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 381666016625 Uncharacterized conserved protein [Function unknown]; Region: COG2128 381666016626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666016627 NADH(P)-binding; Region: NAD_binding_10; pfam13460 381666016628 NAD(P) binding site [chemical binding]; other site 381666016629 active site 381666016630 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666016631 Coenzyme A binding pocket [chemical binding]; other site 381666016632 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 381666016633 Isochorismatase family; Region: Isochorismatase; pfam00857 381666016634 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 381666016635 catalytic triad [active] 381666016636 conserved cis-peptide bond; other site 381666016637 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666016638 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 381666016639 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 381666016640 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 381666016641 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666016642 DNA-binding site [nucleotide binding]; DNA binding site 381666016643 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 381666016644 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666016645 homodimer interface [polypeptide binding]; other site 381666016646 catalytic residue [active] 381666016647 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 381666016648 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666016649 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 381666016650 N-terminal domain interface [polypeptide binding]; other site 381666016651 substrate binding pocket (H-site) [chemical binding]; other site 381666016652 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 381666016653 Amidase; Region: Amidase; cl11426 381666016654 LysR family transcriptional regulator; Provisional; Region: PRK14997 381666016655 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666016656 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 381666016657 dimerization interface [polypeptide binding]; other site 381666016658 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 381666016659 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 381666016660 putative FMN binding site [chemical binding]; other site 381666016661 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 381666016662 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 381666016663 active site 381666016664 dimer interface [polypeptide binding]; other site 381666016665 metal binding site [ion binding]; metal-binding site 381666016666 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 381666016667 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 381666016668 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 381666016669 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 381666016670 Zn binding site [ion binding]; other site 381666016671 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 381666016672 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666016673 Zn binding site [ion binding]; other site 381666016674 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666016675 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 381666016676 ligand binding site [chemical binding]; other site 381666016677 flexible hinge region; other site 381666016678 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 381666016679 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666016680 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666016681 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666016682 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 381666016683 DNA binding site [nucleotide binding] 381666016684 Predicted integral membrane protein [Function unknown]; Region: COG5616 381666016685 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 381666016686 TPR motif; other site 381666016687 TPR repeat; Region: TPR_11; pfam13414 381666016688 binding surface 381666016689 TPR repeat; Region: TPR_11; pfam13414 381666016690 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 381666016691 binding surface 381666016692 TPR motif; other site 381666016693 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 381666016694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666016695 NAD(P) binding site [chemical binding]; other site 381666016696 active site 381666016697 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666016698 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666016699 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666016700 putative effector binding pocket; other site 381666016701 dimerization interface [polypeptide binding]; other site 381666016702 Isochorismatase family; Region: Isochorismatase; pfam00857 381666016703 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 381666016704 catalytic triad [active] 381666016705 conserved cis-peptide bond; other site 381666016706 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666016707 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 381666016708 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 381666016709 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 381666016710 tetramer interface [polypeptide binding]; other site 381666016711 heme binding pocket [chemical binding]; other site 381666016712 NADPH binding site [chemical binding]; other site 381666016713 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 381666016714 Ligand Binding Site [chemical binding]; other site 381666016715 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 381666016716 Ligand Binding Site [chemical binding]; other site 381666016717 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 381666016718 Ligand Binding Site [chemical binding]; other site 381666016719 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 381666016720 Ligand Binding Site [chemical binding]; other site 381666016721 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 381666016722 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 381666016723 putative NAD(P) binding site [chemical binding]; other site 381666016724 putative substrate binding site [chemical binding]; other site 381666016725 catalytic Zn binding site [ion binding]; other site 381666016726 structural Zn binding site [ion binding]; other site 381666016727 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666016728 active site 381666016729 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666016730 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666016731 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 381666016732 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666016733 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 381666016734 CoA binding domain; Region: CoA_binding_2; pfam13380 381666016735 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 381666016736 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 381666016737 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666016738 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 381666016739 substrate binding site [chemical binding]; other site 381666016740 oxyanion hole (OAH) forming residues; other site 381666016741 trimer interface [polypeptide binding]; other site 381666016742 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666016743 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 381666016744 Strictosidine synthase; Region: Str_synth; pfam03088 381666016745 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666016746 classical (c) SDRs; Region: SDR_c; cd05233 381666016747 NAD(P) binding site [chemical binding]; other site 381666016748 active site 381666016749 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 381666016750 Uncharacterized conserved protein [Function unknown]; Region: COG2128 381666016751 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 381666016752 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666016753 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 381666016754 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666016755 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 381666016756 putative dimerization interface [polypeptide binding]; other site 381666016757 putative substrate binding pocket [chemical binding]; other site 381666016758 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666016759 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 381666016760 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 381666016761 catalytic site [active] 381666016762 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666016763 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666016764 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666016765 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666016766 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 381666016767 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 381666016768 [4Fe-4S] binding site [ion binding]; other site 381666016769 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 381666016770 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 381666016771 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 381666016772 molybdopterin cofactor binding site; other site 381666016773 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 381666016774 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 381666016775 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 381666016776 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 381666016777 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 381666016778 NnrU protein; Region: NnrU; pfam07298 381666016779 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 381666016780 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666016781 active site 381666016782 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 381666016783 dimerization interface [polypeptide binding]; other site 381666016784 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666016785 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 381666016786 dimer interface [polypeptide binding]; other site 381666016787 phosphorylation site [posttranslational modification] 381666016788 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 381666016789 ATP binding site [chemical binding]; other site 381666016790 Mg2+ binding site [ion binding]; other site 381666016791 G-X-G motif; other site 381666016792 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 381666016793 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 381666016794 active site 381666016795 phosphorylation site [posttranslational modification] 381666016796 intermolecular recognition site; other site 381666016797 dimerization interface [polypeptide binding]; other site 381666016798 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 381666016799 Walker A motif; other site 381666016800 ATP binding site [chemical binding]; other site 381666016801 Walker B motif; other site 381666016802 arginine finger; other site 381666016803 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 381666016804 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 381666016805 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 381666016806 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 381666016807 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 381666016808 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 381666016809 Fusaric acid resistance protein family; Region: FUSC; pfam04632 381666016810 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 381666016811 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 381666016812 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 381666016813 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666016814 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666016815 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 381666016816 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 381666016817 FeS/SAM binding site; other site 381666016818 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 381666016819 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 381666016820 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 381666016821 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666016822 DNA-binding site [nucleotide binding]; DNA binding site 381666016823 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 381666016824 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666016825 homodimer interface [polypeptide binding]; other site 381666016826 catalytic residue [active] 381666016827 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 381666016828 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 381666016829 dimer interface [polypeptide binding]; other site 381666016830 putative functional site; other site 381666016831 putative MPT binding site; other site 381666016832 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 381666016833 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 381666016834 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 381666016835 putative molybdopterin cofactor binding site [chemical binding]; other site 381666016836 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 381666016837 putative molybdopterin cofactor binding site; other site 381666016838 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666016839 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666016840 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 381666016841 dimerization interface [polypeptide binding]; other site 381666016842 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 381666016843 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 381666016844 metal binding site [ion binding]; metal-binding site 381666016845 putative dimer interface [polypeptide binding]; other site 381666016846 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666016847 Dienelactone hydrolase family; Region: DLH; pfam01738 381666016848 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666016849 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 381666016850 dimer interface [polypeptide binding]; other site 381666016851 conserved gate region; other site 381666016852 ABC-ATPase subunit interface; other site 381666016853 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 381666016854 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 381666016855 Walker A/P-loop; other site 381666016856 ATP binding site [chemical binding]; other site 381666016857 Q-loop/lid; other site 381666016858 ABC transporter signature motif; other site 381666016859 Walker B; other site 381666016860 D-loop; other site 381666016861 H-loop/switch region; other site 381666016862 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 381666016863 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 381666016864 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 381666016865 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 381666016866 active site 381666016867 non-prolyl cis peptide bond; other site 381666016868 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 381666016869 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 381666016870 Flavin binding site [chemical binding]; other site 381666016871 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 381666016872 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 381666016873 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 381666016874 Chromate transporter; Region: Chromate_transp; pfam02417 381666016875 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 381666016876 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 381666016877 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 381666016878 putative substrate translocation pore; other site 381666016879 Fic/DOC family; Region: Fic; pfam02661 381666016880 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 381666016881 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 381666016882 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 381666016883 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 381666016884 catalytic residues [active] 381666016885 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 381666016886 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 381666016887 N-terminal plug; other site 381666016888 ligand-binding site [chemical binding]; other site 381666016889 xanthine permease; Region: pbuX; TIGR03173 381666016890 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 381666016891 Peptidase family M23; Region: Peptidase_M23; pfam01551 381666016892 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 381666016893 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 381666016894 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 381666016895 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 381666016896 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 381666016897 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 381666016898 Walker A/P-loop; other site 381666016899 ATP binding site [chemical binding]; other site 381666016900 Q-loop/lid; other site 381666016901 ABC transporter signature motif; other site 381666016902 Walker B; other site 381666016903 D-loop; other site 381666016904 H-loop/switch region; other site 381666016905 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 381666016906 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666016907 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 381666016908 TM-ABC transporter signature motif; other site 381666016909 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 381666016910 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 381666016911 putative ligand binding site [chemical binding]; other site 381666016912 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 381666016913 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 381666016914 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 381666016915 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 381666016916 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 381666016917 active site 381666016918 dimer interface [polypeptide binding]; other site 381666016919 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 381666016920 dimer interface [polypeptide binding]; other site 381666016921 active site 381666016922 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 381666016923 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 381666016924 putative substrate binding site [chemical binding]; other site 381666016925 putative ATP binding site [chemical binding]; other site 381666016926 Predicted transcriptional regulator [Transcription]; Region: COG4190 381666016927 Helix-turn-helix domain; Region: HTH_20; pfam12840 381666016928 dimerization interface [polypeptide binding]; other site 381666016929 putative DNA binding site [nucleotide binding]; other site 381666016930 putative Zn2+ binding site [ion binding]; other site 381666016931 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 381666016932 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666016933 putative substrate translocation pore; other site 381666016934 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 381666016935 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 381666016936 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 381666016937 active site 381666016938 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666016939 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666016940 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 381666016941 dimerization interface [polypeptide binding]; other site 381666016942 substrate binding pocket [chemical binding]; other site 381666016943 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666016944 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 381666016945 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666016946 NAD(P) binding site [chemical binding]; other site 381666016947 active site 381666016948 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 381666016949 Transcriptional regulator; Region: Rrf2; pfam02082 381666016950 Transcriptional regulator; Region: Rrf2; cl17282 381666016951 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 381666016952 putative ABC transporter; Region: ycf24; CHL00085 381666016953 FeS assembly ATPase SufC; Region: sufC; TIGR01978 381666016954 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 381666016955 Walker A/P-loop; other site 381666016956 ATP binding site [chemical binding]; other site 381666016957 Q-loop/lid; other site 381666016958 ABC transporter signature motif; other site 381666016959 Walker B; other site 381666016960 D-loop; other site 381666016961 H-loop/switch region; other site 381666016962 FeS assembly protein SufD; Region: sufD; TIGR01981 381666016963 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 381666016964 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 381666016965 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 381666016966 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666016967 catalytic residue [active] 381666016968 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 381666016969 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 381666016970 trimerization site [polypeptide binding]; other site 381666016971 active site 381666016972 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 381666016973 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 381666016974 [2Fe-2S] cluster binding site [ion binding]; other site 381666016975 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 381666016976 Double zinc ribbon; Region: DZR; pfam12773 381666016977 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 381666016978 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 381666016979 cyclase homology domain; Region: CHD; cd07302 381666016980 nucleotidyl binding site; other site 381666016981 metal binding site [ion binding]; metal-binding site 381666016982 dimer interface [polypeptide binding]; other site 381666016983 AAA ATPase domain; Region: AAA_16; pfam13191 381666016984 Predicted ATPase [General function prediction only]; Region: COG3899 381666016985 Tetratricopeptide repeat; Region: TPR_12; pfam13424 381666016986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 381666016987 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 381666016988 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 381666016989 active site 381666016990 nucleophile elbow; other site 381666016991 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 381666016992 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666016993 metal binding site [ion binding]; metal-binding site 381666016994 active site 381666016995 I-site; other site 381666016996 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666016997 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666016998 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 381666016999 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666017000 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666017001 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666017002 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 381666017003 catalytic loop [active] 381666017004 iron binding site [ion binding]; other site 381666017005 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666017006 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 381666017007 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666017008 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 381666017009 dimerization interface [polypeptide binding]; other site 381666017010 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666017011 MarR family; Region: MarR; pfam01047 381666017012 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666017013 Sulfatase; Region: Sulfatase; cl17466 381666017014 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 381666017015 Protein required for attachment to host cells; Region: Host_attach; pfam10116 381666017016 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666017017 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666017018 DNA-binding site [nucleotide binding]; DNA binding site 381666017019 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 381666017020 choline dehydrogenase; Validated; Region: PRK02106 381666017021 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 381666017022 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666017023 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 381666017024 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 381666017025 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666017026 NAD binding site [chemical binding]; other site 381666017027 catalytic residues [active] 381666017028 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 381666017029 Domain of unknown function DUF20; Region: UPF0118; pfam01594 381666017030 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 381666017031 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 381666017032 tetramerization interface [polypeptide binding]; other site 381666017033 NAD(P) binding site [chemical binding]; other site 381666017034 catalytic residues [active] 381666017035 transcriptional activator FlhD; Provisional; Region: PRK02909 381666017036 CRP/FNR family transcriptional regulator; Provisional; Region: PRK13918 381666017037 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 381666017038 ligand binding site [chemical binding]; other site 381666017039 flexible hinge region; other site 381666017040 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 381666017041 putative switch regulator; other site 381666017042 non-specific DNA interactions [nucleotide binding]; other site 381666017043 DNA binding site [nucleotide binding] 381666017044 sequence specific DNA binding site [nucleotide binding]; other site 381666017045 putative cAMP binding site [chemical binding]; other site 381666017046 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 381666017047 PAS domain; Region: PAS_9; pfam13426 381666017048 putative active site [active] 381666017049 heme pocket [chemical binding]; other site 381666017050 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 381666017051 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 381666017052 putative active site [active] 381666017053 heme pocket [chemical binding]; other site 381666017054 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 381666017055 dimer interface [polypeptide binding]; other site 381666017056 phosphorylation site [posttranslational modification] 381666017057 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 381666017058 ATP binding site [chemical binding]; other site 381666017059 Mg2+ binding site [ion binding]; other site 381666017060 G-X-G motif; other site 381666017061 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 381666017062 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 381666017063 active site 381666017064 phosphorylation site [posttranslational modification] 381666017065 intermolecular recognition site; other site 381666017066 dimerization interface [polypeptide binding]; other site 381666017067 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666017068 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666017069 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666017070 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666017071 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 381666017072 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 381666017073 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 381666017074 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 381666017075 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 381666017076 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 381666017077 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 381666017078 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 381666017079 Erythromycin esterase; Region: Erythro_esteras; pfam05139 381666017080 BON domain; Region: BON; pfam04972 381666017081 BON domain; Region: BON; pfam04972 381666017082 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 381666017083 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 381666017084 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 381666017085 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 381666017086 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 381666017087 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 381666017088 active site 381666017089 homodimer interface [polypeptide binding]; other site 381666017090 catalytic site [active] 381666017091 acceptor binding site [chemical binding]; other site 381666017092 trehalose synthase; Region: treS_nterm; TIGR02456 381666017093 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 381666017094 active site 381666017095 catalytic site [active] 381666017096 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 381666017097 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 381666017098 glycogen branching enzyme; Provisional; Region: PRK05402 381666017099 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 381666017100 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 381666017101 active site 381666017102 catalytic site [active] 381666017103 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 381666017104 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 381666017105 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 381666017106 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 381666017107 active site 381666017108 catalytic site [active] 381666017109 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 381666017110 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 381666017111 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 381666017112 homodimer interface [polypeptide binding]; other site 381666017113 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 381666017114 active site pocket [active] 381666017115 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 381666017116 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 381666017117 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 381666017118 catalytic site [active] 381666017119 active site 381666017120 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 381666017121 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 381666017122 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 381666017123 active site 381666017124 catalytic site [active] 381666017125 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 381666017126 BON domain; Region: BON; pfam04972 381666017127 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 381666017128 putative catalytic site [active] 381666017129 putative metal binding site [ion binding]; other site 381666017130 putative phosphate binding site [ion binding]; other site 381666017131 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 381666017132 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 381666017133 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 381666017134 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 381666017135 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666017136 Walker A/P-loop; other site 381666017137 ATP binding site [chemical binding]; other site 381666017138 Q-loop/lid; other site 381666017139 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 381666017140 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666017141 Walker A/P-loop; other site 381666017142 ATP binding site [chemical binding]; other site 381666017143 Q-loop/lid; other site 381666017144 ABC transporter signature motif; other site 381666017145 Walker B; other site 381666017146 D-loop; other site 381666017147 H-loop/switch region; other site 381666017148 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 381666017149 addiction module antidote protein, HigA family; Region: antidote_HigA; TIGR02607 381666017150 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 381666017151 Beta-lactamase; Region: Beta-lactamase; pfam00144 381666017152 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666017153 MarR family; Region: MarR_2; pfam12802 381666017154 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 381666017155 dimerization interface [polypeptide binding]; other site 381666017156 active site 381666017157 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666017158 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 381666017159 AsnC family; Region: AsnC_trans_reg; pfam01037 381666017160 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 381666017161 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666017162 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 381666017163 putative dimerization interface [polypeptide binding]; other site 381666017164 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 381666017165 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 381666017166 THF binding site; other site 381666017167 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 381666017168 substrate binding site [chemical binding]; other site 381666017169 THF binding site; other site 381666017170 zinc-binding site [ion binding]; other site 381666017171 Uncharacterized conserved protein [Function unknown]; Region: COG5361 381666017172 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 381666017173 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 381666017174 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 381666017175 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 381666017176 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 381666017177 YciI-like protein; Reviewed; Region: PRK12863 381666017178 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 381666017179 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 381666017180 nudix motif; other site 381666017181 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 381666017182 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 381666017183 putative lipoprotein/autotransporter domain-containing protein; Provisional; Region: PRK14849 381666017184 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 381666017185 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666017186 metal binding site [ion binding]; metal-binding site 381666017187 active site 381666017188 I-site; other site 381666017189 cytosine deaminase; Validated; Region: PRK07572 381666017190 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 381666017191 active site 381666017192 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 381666017193 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666017194 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 381666017195 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666017196 active site 381666017197 Protein of unknown function (DUF1688); Region: DUF1688; pfam07958 381666017198 hypothetical protein; Validated; Region: PRK07198 381666017199 GTP cyclohydrolase N terminal; Region: GTP_CH_N; pfam12471 381666017200 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 381666017201 dimerization interface [polypeptide binding]; other site 381666017202 active site 381666017203 Transcriptional regulators [Transcription]; Region: PurR; COG1609 381666017204 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 381666017205 DNA binding site [nucleotide binding] 381666017206 domain linker motif; other site 381666017207 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 381666017208 putative ligand binding site [chemical binding]; other site 381666017209 putative dimerization interface [polypeptide binding]; other site 381666017210 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein; Region: PhnS; TIGR03227 381666017211 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 381666017212 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 381666017213 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 381666017214 dimer interface [polypeptide binding]; other site 381666017215 conserved gate region; other site 381666017216 putative PBP binding loops; other site 381666017217 ABC-ATPase subunit interface; other site 381666017218 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 381666017219 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 381666017220 dimer interface [polypeptide binding]; other site 381666017221 conserved gate region; other site 381666017222 putative PBP binding loops; other site 381666017223 ABC-ATPase subunit interface; other site 381666017224 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 381666017225 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666017226 Walker A/P-loop; other site 381666017227 ATP binding site [chemical binding]; other site 381666017228 Q-loop/lid; other site 381666017229 ABC transporter signature motif; other site 381666017230 Walker B; other site 381666017231 D-loop; other site 381666017232 H-loop/switch region; other site 381666017233 TOBE domain; Region: TOBE_2; pfam08402 381666017234 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 381666017235 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 381666017236 active site 381666017237 metal binding site [ion binding]; metal-binding site 381666017238 hexamer interface [polypeptide binding]; other site 381666017239 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666017240 FAD binding domain; Region: FAD_binding_4; pfam01565 381666017241 Berberine and berberine like; Region: BBE; pfam08031 381666017242 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 381666017243 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 381666017244 AAA ATPase domain; Region: AAA_16; pfam13191 381666017245 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 381666017246 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 381666017247 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 381666017248 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 381666017249 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 381666017250 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 381666017251 Walker A/P-loop; other site 381666017252 ATP binding site [chemical binding]; other site 381666017253 Q-loop/lid; other site 381666017254 ABC transporter signature motif; other site 381666017255 Walker B; other site 381666017256 D-loop; other site 381666017257 H-loop/switch region; other site 381666017258 von Willebrand factor type A domain; Region: VWA_2; pfam13519 381666017259 metal ion-dependent adhesion site (MIDAS); other site 381666017260 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 381666017261 MoxR-like ATPases [General function prediction only]; Region: COG0714 381666017262 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 381666017263 Walker A motif; other site 381666017264 ATP binding site [chemical binding]; other site 381666017265 Walker B motif; other site 381666017266 arginine finger; other site 381666017267 Protein of unknown function DUF58; Region: DUF58; pfam01882 381666017268 hypothetical protein; Provisional; Region: PRK13685 381666017269 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 381666017270 metal ion-dependent adhesion site (MIDAS); other site 381666017271 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666017272 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666017273 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666017274 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 381666017275 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666017276 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 381666017277 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666017278 multidrug resistance protein MdtN; Provisional; Region: PRK10476 381666017279 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666017280 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666017281 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 381666017282 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666017283 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 381666017284 dimer interface [polypeptide binding]; other site 381666017285 phosphorylation site [posttranslational modification] 381666017286 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 381666017287 ATP binding site [chemical binding]; other site 381666017288 Mg2+ binding site [ion binding]; other site 381666017289 G-X-G motif; other site 381666017290 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 381666017291 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 381666017292 active site 381666017293 phosphorylation site [posttranslational modification] 381666017294 intermolecular recognition site; other site 381666017295 dimerization interface [polypeptide binding]; other site 381666017296 Hpt domain; Region: Hpt; pfam01627 381666017297 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666017298 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 381666017299 active site 381666017300 phosphorylation site [posttranslational modification] 381666017301 intermolecular recognition site; other site 381666017302 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 381666017303 DNA binding residues [nucleotide binding] 381666017304 dimerization interface [polypeptide binding]; other site 381666017305 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 381666017306 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666017307 Coenzyme A binding pocket [chemical binding]; other site 381666017308 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 381666017309 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 381666017310 NAD binding site [chemical binding]; other site 381666017311 homotetramer interface [polypeptide binding]; other site 381666017312 homodimer interface [polypeptide binding]; other site 381666017313 substrate binding site [chemical binding]; other site 381666017314 active site 381666017315 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 381666017316 propionate/acetate kinase; Provisional; Region: PRK12379 381666017317 phosphate acetyltransferase; Provisional; Region: PRK11890 381666017318 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 381666017319 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 381666017320 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666017321 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 381666017322 substrate binding pocket [chemical binding]; other site 381666017323 membrane-bound complex binding site; other site 381666017324 hinge residues; other site 381666017325 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 381666017326 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 381666017327 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 381666017328 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 381666017329 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 381666017330 inhibitor-cofactor binding pocket; inhibition site 381666017331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666017332 catalytic residue [active] 381666017333 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 381666017334 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 381666017335 Ligand binding site; other site 381666017336 Putative Catalytic site; other site 381666017337 DXD motif; other site 381666017338 putative formyltransferase; Provisional; Region: PRK06988 381666017339 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 381666017340 active site 381666017341 substrate binding site [chemical binding]; other site 381666017342 cosubstrate binding site; other site 381666017343 catalytic site [active] 381666017344 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 381666017345 active site 381666017346 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 381666017347 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 381666017348 NAD binding site [chemical binding]; other site 381666017349 substrate binding site [chemical binding]; other site 381666017350 active site 381666017351 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 381666017352 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 381666017353 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 381666017354 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 381666017355 metal-binding site [ion binding] 381666017356 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 381666017357 Soluble P-type ATPase [General function prediction only]; Region: COG4087 381666017358 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 381666017359 dimer interface [polypeptide binding]; other site 381666017360 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 381666017361 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 381666017362 dimer interface [polypeptide binding]; other site 381666017363 phosphorylation site [posttranslational modification] 381666017364 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 381666017365 ATP binding site [chemical binding]; other site 381666017366 Mg2+ binding site [ion binding]; other site 381666017367 G-X-G motif; other site 381666017368 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 381666017369 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 381666017370 active site 381666017371 phosphorylation site [posttranslational modification] 381666017372 intermolecular recognition site; other site 381666017373 dimerization interface [polypeptide binding]; other site 381666017374 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 381666017375 DNA binding site [nucleotide binding] 381666017376 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 381666017377 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 381666017378 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07819 381666017379 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 381666017380 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666017381 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666017382 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666017383 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 381666017384 putative dimerization interface [polypeptide binding]; other site 381666017385 HipA N-terminal domain; Region: couple_hipA; TIGR03071 381666017386 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 381666017387 HipA-like N-terminal domain; Region: HipA_N; pfam07805 381666017388 HipA-like C-terminal domain; Region: HipA_C; pfam07804 381666017389 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 381666017390 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 381666017391 non-specific DNA binding site [nucleotide binding]; other site 381666017392 salt bridge; other site 381666017393 sequence-specific DNA binding site [nucleotide binding]; other site 381666017394 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 381666017395 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 381666017396 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 381666017397 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 381666017398 Ligand binding site; other site 381666017399 Putative Catalytic site; other site 381666017400 DXD motif; other site 381666017401 acyl carrier protein; Provisional; Region: PRK09184 381666017402 Predicted membrane protein [Function unknown]; Region: COG4648 381666017403 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 381666017404 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666017405 acyl-activating enzyme (AAE) consensus motif; other site 381666017406 active site 381666017407 AMP binding site [chemical binding]; other site 381666017408 CoA binding site [chemical binding]; other site 381666017409 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666017410 CoA binding site [chemical binding]; other site 381666017411 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 381666017412 active site 2 [active] 381666017413 dimer interface [polypeptide binding]; other site 381666017414 active site 1 [active] 381666017415 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 381666017416 putative acyl-acceptor binding pocket; other site 381666017417 Predicted exporter [General function prediction only]; Region: COG4258 381666017418 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 381666017419 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 381666017420 NodB motif; other site 381666017421 putative active site [active] 381666017422 putative catalytic site [active] 381666017423 putative Zn binding site [ion binding]; other site 381666017424 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 381666017425 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 381666017426 dimer interface [polypeptide binding]; other site 381666017427 active site 381666017428 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 381666017429 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 381666017430 putative active site 1 [active] 381666017431 fumarylacetoacetase; Region: PLN02856 381666017432 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 381666017433 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 381666017434 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 381666017435 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 381666017436 sequence-specific DNA binding site [nucleotide binding]; other site 381666017437 salt bridge; other site 381666017438 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666017439 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666017440 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 381666017441 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 381666017442 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 381666017443 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 381666017444 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 381666017445 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 381666017446 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 381666017447 N-terminal plug; other site 381666017448 ligand-binding site [chemical binding]; other site 381666017449 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 381666017450 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666017451 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 381666017452 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 381666017453 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 381666017454 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 381666017455 Walker A/P-loop; other site 381666017456 ATP binding site [chemical binding]; other site 381666017457 Q-loop/lid; other site 381666017458 ABC transporter signature motif; other site 381666017459 Walker B; other site 381666017460 D-loop; other site 381666017461 H-loop/switch region; other site 381666017462 Condensation domain; Region: Condensation; pfam00668 381666017463 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 381666017464 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 381666017465 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 381666017466 acyl-activating enzyme (AAE) consensus motif; other site 381666017467 AMP binding site [chemical binding]; other site 381666017468 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 381666017469 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 381666017470 Condensation domain; Region: Condensation; pfam00668 381666017471 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 381666017472 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 381666017473 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 381666017474 acyl-activating enzyme (AAE) consensus motif; other site 381666017475 AMP binding site [chemical binding]; other site 381666017476 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 381666017477 Condensation domain; Region: Condensation; pfam00668 381666017478 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 381666017479 Condensation domain; Region: Condensation; pfam00668 381666017480 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 381666017481 Condensation domain; Region: Condensation; pfam00668 381666017482 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 381666017483 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 381666017484 acyl-activating enzyme (AAE) consensus motif; other site 381666017485 AMP binding site [chemical binding]; other site 381666017486 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 381666017487 Condensation domain; Region: Condensation; pfam00668 381666017488 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 381666017489 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 381666017490 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 381666017491 acyl-activating enzyme (AAE) consensus motif; other site 381666017492 AMP binding site [chemical binding]; other site 381666017493 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 381666017494 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 381666017495 Condensation domain; Region: Condensation; pfam00668 381666017496 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 381666017497 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 381666017498 acyl-activating enzyme (AAE) consensus motif; other site 381666017499 AMP binding site [chemical binding]; other site 381666017500 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 381666017501 Condensation domain; Region: Condensation; pfam00668 381666017502 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 381666017503 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 381666017504 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 381666017505 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 381666017506 MbtH-like protein; Region: MbtH; cl01279 381666017507 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 381666017508 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 381666017509 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 381666017510 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 381666017511 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 381666017512 inhibitor-cofactor binding pocket; inhibition site 381666017513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666017514 catalytic residue [active] 381666017515 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 381666017516 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 381666017517 acyl-activating enzyme (AAE) consensus motif; other site 381666017518 putative AMP binding site [chemical binding]; other site 381666017519 putative active site [active] 381666017520 putative CoA binding site [chemical binding]; other site 381666017521 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 381666017522 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666017523 active site 381666017524 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 381666017525 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 381666017526 substrate binding site [chemical binding]; other site 381666017527 oxyanion hole (OAH) forming residues; other site 381666017528 trimer interface [polypeptide binding]; other site 381666017529 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase; Region: benzo_BadH; TIGR03206 381666017530 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666017531 NAD(P) binding site [chemical binding]; other site 381666017532 active site 381666017533 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666017534 MarR family; Region: MarR_2; pfam12802 381666017535 GYD domain; Region: GYD; pfam08734 381666017536 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 381666017537 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 381666017538 putative NAD(P) binding site [chemical binding]; other site 381666017539 dimer interface [polypeptide binding]; other site 381666017540 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 381666017541 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 381666017542 catalytic loop [active] 381666017543 iron binding site [ion binding]; other site 381666017544 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 381666017545 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 381666017546 [4Fe-4S] binding site [ion binding]; other site 381666017547 molybdopterin cofactor binding site; other site 381666017548 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 381666017549 molybdopterin cofactor binding site; other site 381666017550 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 381666017551 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 381666017552 putative dimer interface [polypeptide binding]; other site 381666017553 [2Fe-2S] cluster binding site [ion binding]; other site 381666017554 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 381666017555 SLBB domain; Region: SLBB; pfam10531 381666017556 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 381666017557 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 381666017558 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 381666017559 putative substrate translocation pore; other site 381666017560 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666017561 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666017562 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 381666017563 putative dimerization interface [polypeptide binding]; other site 381666017564 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666017565 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666017566 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 381666017567 putative dimerization interface [polypeptide binding]; other site 381666017568 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 381666017569 sequence-specific DNA binding site [nucleotide binding]; other site 381666017570 salt bridge; other site 381666017571 acyl-CoA synthetase; Validated; Region: PRK06188 381666017572 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666017573 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 381666017574 acyl-activating enzyme (AAE) consensus motif; other site 381666017575 putative AMP binding site [chemical binding]; other site 381666017576 putative active site [active] 381666017577 acyl-activating enzyme (AAE) consensus motif; other site 381666017578 putative CoA binding site [chemical binding]; other site 381666017579 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 381666017580 PAS domain; Region: PAS_9; pfam13426 381666017581 putative active site [active] 381666017582 heme pocket [chemical binding]; other site 381666017583 formyl-coenzyme A transferase; Provisional; Region: PRK05398 381666017584 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666017585 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 381666017586 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666017587 PYR/PP interface [polypeptide binding]; other site 381666017588 dimer interface [polypeptide binding]; other site 381666017589 TPP binding site [chemical binding]; other site 381666017590 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 381666017591 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 381666017592 TPP-binding site; other site 381666017593 dimer interface [polypeptide binding]; other site 381666017594 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 381666017595 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 381666017596 putative substrate translocation pore; other site 381666017597 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 381666017598 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 381666017599 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 381666017600 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 381666017601 ligand binding site [chemical binding]; other site 381666017602 homodimer interface [polypeptide binding]; other site 381666017603 NAD(P) binding site [chemical binding]; other site 381666017604 trimer interface B [polypeptide binding]; other site 381666017605 trimer interface A [polypeptide binding]; other site 381666017606 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 381666017607 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 381666017608 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 381666017609 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 381666017610 formyl-coenzyme A transferase; Provisional; Region: PRK05398 381666017611 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666017612 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666017613 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666017614 DNA-binding site [nucleotide binding]; DNA binding site 381666017615 FCD domain; Region: FCD; pfam07729 381666017616 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 381666017617 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 381666017618 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 381666017619 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 381666017620 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 381666017621 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 381666017622 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666017623 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666017624 DNA-binding site [nucleotide binding]; DNA binding site 381666017625 FCD domain; Region: FCD; pfam07729 381666017626 EamA-like transporter family; Region: EamA; pfam00892 381666017627 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 381666017628 RNA polymerase sigma factor; Provisional; Region: PRK12511 381666017629 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666017630 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 381666017631 DNA binding residues [nucleotide binding] 381666017632 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 381666017633 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666017634 Serine hydrolase; Region: Ser_hydrolase; cl17834 381666017635 Transposase; Region: HTH_Tnp_1; cl17663 381666017636 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 381666017637 classical (c) SDRs; Region: SDR_c; cd05233 381666017638 NAD(P) binding site [chemical binding]; other site 381666017639 active site 381666017640 Cupin; Region: Cupin_6; pfam12852 381666017641 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666017642 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666017643 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666017644 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 381666017645 putative NAD(P) binding site [chemical binding]; other site 381666017646 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 381666017647 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666017648 NAD binding site [chemical binding]; other site 381666017649 catalytic residues [active] 381666017650 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 381666017651 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666017652 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666017653 acyl-activating enzyme (AAE) consensus motif; other site 381666017654 acyl-activating enzyme (AAE) consensus motif; other site 381666017655 AMP binding site [chemical binding]; other site 381666017656 active site 381666017657 CoA binding site [chemical binding]; other site 381666017658 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666017659 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666017660 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666017661 putative effector binding pocket; other site 381666017662 dimerization interface [polypeptide binding]; other site 381666017663 enoyl-CoA hydratase; Provisional; Region: PRK06127 381666017664 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 381666017665 substrate binding site [chemical binding]; other site 381666017666 oxyanion hole (OAH) forming residues; other site 381666017667 trimer interface [polypeptide binding]; other site 381666017668 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 381666017669 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666017670 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666017671 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 381666017672 enoyl-CoA hydratase; Provisional; Region: PRK06210 381666017673 substrate binding site [chemical binding]; other site 381666017674 oxyanion hole (OAH) forming residues; other site 381666017675 trimer interface [polypeptide binding]; other site 381666017676 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 381666017677 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 381666017678 substrate binding site [chemical binding]; other site 381666017679 oxyanion hole (OAH) forming residues; other site 381666017680 trimer interface [polypeptide binding]; other site 381666017681 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 381666017682 Cytochrome P450; Region: p450; cl12078 381666017683 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 381666017684 4Fe-4S binding domain; Region: Fer4; pfam00037 381666017685 4Fe-4S binding domain; Region: Fer4; pfam00037 381666017686 These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer...; Region: CYPOR_like_FNR; cd06208 381666017687 dimerization interface [polypeptide binding]; other site 381666017688 FAD binding pocket [chemical binding]; other site 381666017689 FAD binding motif [chemical binding]; other site 381666017690 catalytic residues [active] 381666017691 NAD binding pocket [chemical binding]; other site 381666017692 phosphate binding motif [ion binding]; other site 381666017693 beta-alpha-beta structure motif; other site 381666017694 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 381666017695 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 381666017696 NAD binding site [chemical binding]; other site 381666017697 catalytic Zn binding site [ion binding]; other site 381666017698 substrate binding site [chemical binding]; other site 381666017699 structural Zn binding site [ion binding]; other site 381666017700 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 381666017701 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666017702 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 381666017703 nucleophile elbow; other site 381666017704 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666017705 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666017706 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666017707 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666017708 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 381666017709 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 381666017710 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666017711 Magnetospirillum NAD(P)+-dependent aldehyde dehydrogenase MSR-1-like; Region: ALDH_MGR_2402; cd07108 381666017712 NAD(P) binding site [chemical binding]; other site 381666017713 catalytic residues [active] 381666017714 catalytic residues [active] 381666017715 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666017716 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 381666017717 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 381666017718 metal binding site [ion binding]; metal-binding site 381666017719 putative dimer interface [polypeptide binding]; other site 381666017720 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666017721 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666017722 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666017723 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 381666017724 dimerization interface [polypeptide binding]; other site 381666017725 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 381666017726 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 381666017727 conserved cys residue [active] 381666017728 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 381666017729 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666017730 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 381666017731 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 381666017732 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 381666017733 carboxyltransferase (CT) interaction site; other site 381666017734 biotinylation site [posttranslational modification]; other site 381666017735 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 381666017736 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 381666017737 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 381666017738 hypothetical protein; Provisional; Region: PRK05463 381666017739 benzoate transport; Region: 2A0115; TIGR00895 381666017740 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 381666017741 putative substrate translocation pore; other site 381666017742 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666017743 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666017744 DNA-binding site [nucleotide binding]; DNA binding site 381666017745 FCD domain; Region: FCD; pfam07729 381666017746 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 381666017747 FMN binding site [chemical binding]; other site 381666017748 substrate binding site [chemical binding]; other site 381666017749 putative catalytic residue [active] 381666017750 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 381666017751 Putative amidotransferase; Region: DUF4066; pfam13278 381666017752 conserved cys residue [active] 381666017753 mercuric reductase; Validated; Region: PRK06370 381666017754 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666017755 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 381666017756 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 381666017757 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666017758 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 381666017759 dimerization interface [polypeptide binding]; other site 381666017760 short chain dehydrogenase; Provisional; Region: PRK06500 381666017761 classical (c) SDRs; Region: SDR_c; cd05233 381666017762 NAD(P) binding site [chemical binding]; other site 381666017763 active site 381666017764 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 381666017765 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 381666017766 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 381666017767 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 381666017768 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 381666017769 putative active site [active] 381666017770 putative catalytic site [active] 381666017771 putative acyltransferase; Provisional; Region: PRK05790 381666017772 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 381666017773 dimer interface [polypeptide binding]; other site 381666017774 active site 381666017775 Predicted transcriptional regulators [Transcription]; Region: COG1733 381666017776 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 381666017777 enoyl-CoA hydratase; Provisional; Region: PRK06688 381666017778 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 381666017779 substrate binding site [chemical binding]; other site 381666017780 oxyanion hole (OAH) forming residues; other site 381666017781 trimer interface [polypeptide binding]; other site 381666017782 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666017783 MarR family; Region: MarR_2; pfam12802 381666017784 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 381666017785 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 381666017786 conserved cys residue [active] 381666017787 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666017788 MAPEG family; Region: MAPEG; pfam01124 381666017789 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666017790 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 381666017791 catalytic site [active] 381666017792 Epoxide hydrolase N terminus; Region: EHN; pfam06441 381666017793 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666017794 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666017795 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 381666017796 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666017797 putative substrate translocation pore; other site 381666017798 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 381666017799 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666017800 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666017801 Predicted transcriptional regulators [Transcription]; Region: COG1733 381666017802 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 381666017803 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 381666017804 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 381666017805 dimer interface [polypeptide binding]; other site 381666017806 phosphorylation site [posttranslational modification] 381666017807 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 381666017808 ATP binding site [chemical binding]; other site 381666017809 Mg2+ binding site [ion binding]; other site 381666017810 G-X-G motif; other site 381666017811 osmolarity response regulator; Provisional; Region: ompR; PRK09468 381666017812 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 381666017813 active site 381666017814 phosphorylation site [posttranslational modification] 381666017815 intermolecular recognition site; other site 381666017816 dimerization interface [polypeptide binding]; other site 381666017817 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 381666017818 DNA binding site [nucleotide binding] 381666017819 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666017820 classical (c) SDRs; Region: SDR_c; cd05233 381666017821 NAD(P) binding site [chemical binding]; other site 381666017822 active site 381666017823 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666017824 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666017825 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666017826 putative effector binding pocket; other site 381666017827 dimerization interface [polypeptide binding]; other site 381666017828 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 381666017829 homotrimer interaction site [polypeptide binding]; other site 381666017830 putative active site [active] 381666017831 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 381666017832 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 381666017833 conserved cys residue [active] 381666017834 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666017835 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 381666017836 classical (c) SDRs; Region: SDR_c; cd05233 381666017837 NAD(P) binding site [chemical binding]; other site 381666017838 active site 381666017839 Transcriptional regulators [Transcription]; Region: PurR; COG1609 381666017840 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 381666017841 DNA binding site [nucleotide binding] 381666017842 domain linker motif; other site 381666017843 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 381666017844 dimerization interface [polypeptide binding]; other site 381666017845 ligand binding site [chemical binding]; other site 381666017846 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666017847 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666017848 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666017849 trimer interface [polypeptide binding]; other site 381666017850 eyelet of channel; other site 381666017851 Cupin domain; Region: Cupin_2; pfam07883 381666017852 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666017853 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 381666017854 NAD(P) binding site [chemical binding]; other site 381666017855 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 381666017856 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 381666017857 classical (c) SDRs; Region: SDR_c; cd05233 381666017858 NAD(P) binding site [chemical binding]; other site 381666017859 active site 381666017860 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 381666017861 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 381666017862 active site 381666017863 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 381666017864 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 381666017865 OsmC-like protein; Region: OsmC; cl00767 381666017866 Cupin; Region: Cupin_6; pfam12852 381666017867 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666017868 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666017869 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666017870 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 381666017871 NADP binding site [chemical binding]; other site 381666017872 active site 381666017873 steroid binding site; other site 381666017874 Transcriptional regulators [Transcription]; Region: PurR; COG1609 381666017875 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 381666017876 DNA binding site [nucleotide binding] 381666017877 domain linker motif; other site 381666017878 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 381666017879 putative dimerization interface [polypeptide binding]; other site 381666017880 putative ligand binding site [chemical binding]; other site 381666017881 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666017882 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 381666017883 substrate binding pocket [chemical binding]; other site 381666017884 membrane-bound complex binding site; other site 381666017885 hinge residues; other site 381666017886 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666017887 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 381666017888 dimer interface [polypeptide binding]; other site 381666017889 conserved gate region; other site 381666017890 ABC-ATPase subunit interface; other site 381666017891 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666017892 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 381666017893 dimer interface [polypeptide binding]; other site 381666017894 conserved gate region; other site 381666017895 putative PBP binding loops; other site 381666017896 ABC-ATPase subunit interface; other site 381666017897 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 381666017898 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 381666017899 Walker A/P-loop; other site 381666017900 ATP binding site [chemical binding]; other site 381666017901 Q-loop/lid; other site 381666017902 ABC transporter signature motif; other site 381666017903 Walker B; other site 381666017904 D-loop; other site 381666017905 H-loop/switch region; other site 381666017906 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 381666017907 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 381666017908 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 381666017909 substrate binding site [chemical binding]; other site 381666017910 ATP binding site [chemical binding]; other site 381666017911 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 381666017912 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 381666017913 dimerization interface [polypeptide binding]; other site 381666017914 ligand binding site [chemical binding]; other site 381666017915 NADP binding site [chemical binding]; other site 381666017916 catalytic site [active] 381666017917 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666017918 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666017919 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666017920 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 381666017921 dimerization interface [polypeptide binding]; other site 381666017922 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 381666017923 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 381666017924 phosphate binding site [ion binding]; other site 381666017925 hypothetical protein; Validated; Region: PRK06201 381666017926 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 381666017927 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 381666017928 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 381666017929 ligand binding site [chemical binding]; other site 381666017930 NAD binding site [chemical binding]; other site 381666017931 dimerization interface [polypeptide binding]; other site 381666017932 catalytic site [active] 381666017933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666017934 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666017935 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666017936 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 381666017937 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666017938 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 381666017939 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666017940 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666017941 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666017942 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666017943 active site 381666017944 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666017945 FAD binding domain; Region: FAD_binding_4; pfam01565 381666017946 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 381666017947 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 381666017948 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 381666017949 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666017950 Walker A/P-loop; other site 381666017951 ATP binding site [chemical binding]; other site 381666017952 Q-loop/lid; other site 381666017953 ABC transporter signature motif; other site 381666017954 Walker B; other site 381666017955 D-loop; other site 381666017956 H-loop/switch region; other site 381666017957 TOBE domain; Region: TOBE_2; pfam08402 381666017958 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 381666017959 dimer interface [polypeptide binding]; other site 381666017960 conserved gate region; other site 381666017961 putative PBP binding loops; other site 381666017962 ABC-ATPase subunit interface; other site 381666017963 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 381666017964 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 381666017965 dimer interface [polypeptide binding]; other site 381666017966 conserved gate region; other site 381666017967 putative PBP binding loops; other site 381666017968 ABC-ATPase subunit interface; other site 381666017969 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 381666017970 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 381666017971 inhibitor site; inhibition site 381666017972 active site 381666017973 dimer interface [polypeptide binding]; other site 381666017974 catalytic residue [active] 381666017975 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 381666017976 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 381666017977 phosphate binding site [ion binding]; other site 381666017978 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666017979 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666017980 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666017981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666017982 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 381666017983 NAD(P) binding site [chemical binding]; other site 381666017984 active site 381666017985 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666017986 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 381666017987 NAD(P) binding site [chemical binding]; other site 381666017988 catalytic residues [active] 381666017989 catalytic residues [active] 381666017990 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 381666017991 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 381666017992 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 381666017993 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666017994 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 381666017995 putative ligand binding site [chemical binding]; other site 381666017996 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 381666017997 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666017998 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666017999 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 381666018000 B12 binding site [chemical binding]; other site 381666018001 cobalt ligand [ion binding]; other site 381666018002 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 381666018003 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666018004 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 381666018005 substrate binding site [chemical binding]; other site 381666018006 oxyanion hole (OAH) forming residues; other site 381666018007 trimer interface [polypeptide binding]; other site 381666018008 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666018009 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 381666018010 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666018011 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 381666018012 putative uracil binding site [chemical binding]; other site 381666018013 putative active site [active] 381666018014 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666018015 Uncharacterized conserved protein [Function unknown]; Region: COG5476 381666018016 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 381666018017 MlrC C-terminus; Region: MlrC_C; pfam07171 381666018018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666018019 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666018020 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666018021 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 381666018022 dimerization interface [polypeptide binding]; other site 381666018023 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666018024 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 381666018025 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666018026 choline dehydrogenase; Validated; Region: PRK02106 381666018027 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 381666018028 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 381666018029 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666018030 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 381666018031 putative substrate translocation pore; other site 381666018032 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666018033 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666018034 DNA-binding site [nucleotide binding]; DNA binding site 381666018035 FCD domain; Region: FCD; pfam07729 381666018036 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 381666018037 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 381666018038 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 381666018039 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 381666018040 Mechanosensitive ion channel; Region: MS_channel; pfam00924 381666018041 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 381666018042 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666018043 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666018044 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666018045 Outer membrane efflux protein; Region: OEP; pfam02321 381666018046 Outer membrane efflux protein; Region: OEP; pfam02321 381666018047 PemK-like protein; Region: PemK; pfam02452 381666018048 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative...; Region: 4RHOD_Repeat_1; cd01532 381666018049 active site residue [active] 381666018050 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 381666018051 active site residue [active] 381666018052 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 381666018053 active site residue [active] 381666018054 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 381666018055 active site residue [active] 381666018056 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 381666018057 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666018058 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666018059 active site 381666018060 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 381666018061 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 381666018062 dimer interface [polypeptide binding]; other site 381666018063 active site 381666018064 non-prolyl cis peptide bond; other site 381666018065 insertion regions; other site 381666018066 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 381666018067 NMT1-like family; Region: NMT1_2; pfam13379 381666018068 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 381666018069 dimer interface [polypeptide binding]; other site 381666018070 conserved gate region; other site 381666018071 putative PBP binding loops; other site 381666018072 ABC-ATPase subunit interface; other site 381666018073 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 381666018074 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 381666018075 Walker A/P-loop; other site 381666018076 ATP binding site [chemical binding]; other site 381666018077 Q-loop/lid; other site 381666018078 ABC transporter signature motif; other site 381666018079 Walker B; other site 381666018080 D-loop; other site 381666018081 H-loop/switch region; other site 381666018082 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 381666018083 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 381666018084 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 381666018085 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666018086 PYR/PP interface [polypeptide binding]; other site 381666018087 dimer interface [polypeptide binding]; other site 381666018088 TPP binding site [chemical binding]; other site 381666018089 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 381666018090 Thiamine pyrophosphate (TPP) family, Xsc-like subfamily, TPP-binding module; composed of proteins similar to Alcaligenes defragrans sulfoacetaldehyde acetyltransferase (Xsc). Xsc plays a key role in the degradation of taurine, catalyzing the...; Region: TPP_Xsc_like; cd02013 381666018091 TPP-binding site; other site 381666018092 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 381666018093 putative sialic acid transporter; Region: 2A0112; TIGR00891 381666018094 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 381666018095 putative substrate translocation pore; other site 381666018096 amidase; Provisional; Region: PRK06170 381666018097 Amidase; Region: Amidase; cl11426 381666018098 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666018099 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666018100 DNA-binding site [nucleotide binding]; DNA binding site 381666018101 FCD domain; Region: FCD; pfam07729 381666018102 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 381666018103 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 381666018104 catalytic loop [active] 381666018105 iron binding site [ion binding]; other site 381666018106 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 381666018107 FAD binding pocket [chemical binding]; other site 381666018108 FAD binding motif [chemical binding]; other site 381666018109 phosphate binding motif [ion binding]; other site 381666018110 beta-alpha-beta structure motif; other site 381666018111 NAD binding pocket [chemical binding]; other site 381666018112 Domain of unknown function (DUF336); Region: DUF336; pfam03928 381666018113 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 381666018114 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666018115 NAD(P) binding site [chemical binding]; other site 381666018116 catalytic residues [active] 381666018117 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 381666018118 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 381666018119 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 381666018120 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 381666018121 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 381666018122 catalytic loop [active] 381666018123 iron binding site [ion binding]; other site 381666018124 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 381666018125 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 381666018126 catalytic loop [active] 381666018127 iron binding site [ion binding]; other site 381666018128 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 381666018129 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 381666018130 metal ion-dependent adhesion site (MIDAS); other site 381666018131 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 381666018132 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 381666018133 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 381666018134 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 381666018135 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 381666018136 putative DNA binding site [nucleotide binding]; other site 381666018137 putative Zn2+ binding site [ion binding]; other site 381666018138 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666018139 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 381666018140 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 381666018141 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666018142 DNA-binding site [nucleotide binding]; DNA binding site 381666018143 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 381666018144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666018145 homodimer interface [polypeptide binding]; other site 381666018146 catalytic residue [active] 381666018147 SnoaL-like domain; Region: SnoaL_2; pfam12680 381666018148 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 381666018149 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 381666018150 short chain dehydrogenase; Provisional; Region: PRK07035 381666018151 classical (c) SDRs; Region: SDR_c; cd05233 381666018152 NAD(P) binding site [chemical binding]; other site 381666018153 active site 381666018154 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666018155 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666018156 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666018157 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 381666018158 catalytic loop [active] 381666018159 iron binding site [ion binding]; other site 381666018160 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666018161 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 381666018162 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 381666018163 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666018164 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 381666018165 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666018166 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666018167 Coenzyme A binding pocket [chemical binding]; other site 381666018168 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666018169 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666018170 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666018171 putative effector binding pocket; other site 381666018172 dimerization interface [polypeptide binding]; other site 381666018173 DUF35 OB-fold domain; Region: DUF35; pfam01796 381666018174 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 381666018175 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 381666018176 active site 381666018177 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666018178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666018179 NAD(P) binding site [chemical binding]; other site 381666018180 active site 381666018181 enoyl-CoA hydratase; Provisional; Region: PRK06494 381666018182 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 381666018183 substrate binding site [chemical binding]; other site 381666018184 oxyanion hole (OAH) forming residues; other site 381666018185 trimer interface [polypeptide binding]; other site 381666018186 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666018187 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 381666018188 CoenzymeA binding site [chemical binding]; other site 381666018189 subunit interaction site [polypeptide binding]; other site 381666018190 PHB binding site; other site 381666018191 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666018192 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666018193 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666018194 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666018195 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 381666018196 dimerization interface [polypeptide binding]; other site 381666018197 substrate binding pocket [chemical binding]; other site 381666018198 short chain dehydrogenase; Provisional; Region: PRK06180 381666018199 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 381666018200 NADP binding site [chemical binding]; other site 381666018201 active site 381666018202 steroid binding site; other site 381666018203 elongation factor G; Reviewed; Region: PRK13351 381666018204 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 381666018205 G1 box; other site 381666018206 putative GEF interaction site [polypeptide binding]; other site 381666018207 GTP/Mg2+ binding site [chemical binding]; other site 381666018208 Switch I region; other site 381666018209 G2 box; other site 381666018210 G3 box; other site 381666018211 Switch II region; other site 381666018212 G4 box; other site 381666018213 G5 box; other site 381666018214 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 381666018215 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 381666018216 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 381666018217 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 381666018218 4Fe-4S binding domain; Region: Fer4; pfam00037 381666018219 4Fe-4S binding domain; Region: Fer4; pfam00037 381666018220 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 381666018221 FAD binding pocket [chemical binding]; other site 381666018222 conserved FAD binding motif [chemical binding]; other site 381666018223 phosphate binding motif [ion binding]; other site 381666018224 beta-alpha-beta structure motif; other site 381666018225 NAD binding pocket [chemical binding]; other site 381666018226 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 381666018227 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 381666018228 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 381666018229 substrate binding site [chemical binding]; other site 381666018230 oxyanion hole (OAH) forming residues; other site 381666018231 trimer interface [polypeptide binding]; other site 381666018232 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 381666018233 trimer interface [polypeptide binding]; other site 381666018234 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 381666018235 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 381666018236 non-specific DNA binding site [nucleotide binding]; other site 381666018237 salt bridge; other site 381666018238 sequence-specific DNA binding site [nucleotide binding]; other site 381666018239 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 381666018240 ADP binding site [chemical binding]; other site 381666018241 magnesium binding site [ion binding]; other site 381666018242 putative shikimate binding site; other site 381666018243 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 381666018244 aldehyde dehydrogenase; Provisional; Region: PRK11903 381666018245 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 381666018246 NAD(P) binding site [chemical binding]; other site 381666018247 catalytic residues [active] 381666018248 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 381666018249 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666018250 acyl-activating enzyme (AAE) consensus motif; other site 381666018251 AMP binding site [chemical binding]; other site 381666018252 active site 381666018253 CoA binding site [chemical binding]; other site 381666018254 benzoate transport; Region: 2A0115; TIGR00895 381666018255 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 381666018256 putative substrate translocation pore; other site 381666018257 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 381666018258 Isochorismatase family; Region: Isochorismatase; pfam00857 381666018259 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 381666018260 catalytic triad [active] 381666018261 dimer interface [polypeptide binding]; other site 381666018262 conserved cis-peptide bond; other site 381666018263 Isochorismatase family; Region: Isochorismatase; pfam00857 381666018264 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 381666018265 catalytic triad [active] 381666018266 dimer interface [polypeptide binding]; other site 381666018267 conserved cis-peptide bond; other site 381666018268 LysR family transcriptional regulator; Provisional; Region: PRK14997 381666018269 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666018270 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 381666018271 putative effector binding pocket; other site 381666018272 putative dimerization interface [polypeptide binding]; other site 381666018273 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 381666018274 rRNA binding site [nucleotide binding]; other site 381666018275 predicted 30S ribosome binding site; other site 381666018276 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 381666018277 DNA-binding site [nucleotide binding]; DNA binding site 381666018278 RNA-binding motif; other site 381666018279 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 381666018280 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 381666018281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 381666018282 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 381666018283 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 381666018284 dimerization interface [polypeptide binding]; other site 381666018285 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 381666018286 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666018287 dimer interface [polypeptide binding]; other site 381666018288 putative CheW interface [polypeptide binding]; other site 381666018289 Phasin protein; Region: Phasin_2; pfam09361 381666018290 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 381666018291 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 381666018292 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666018293 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666018294 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666018295 putative effector binding pocket; other site 381666018296 dimerization interface [polypeptide binding]; other site 381666018297 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666018298 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 381666018299 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666018300 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 381666018301 NAD(P) binding site [chemical binding]; other site 381666018302 catalytic residues [active] 381666018303 Transmembrane secretion effector; Region: MFS_3; pfam05977 381666018304 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 381666018305 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 381666018306 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 381666018307 active site 381666018308 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666018309 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 381666018310 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 381666018311 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 381666018312 Isochorismatase family; Region: Isochorismatase; pfam00857 381666018313 catalytic triad [active] 381666018314 dimer interface [polypeptide binding]; other site 381666018315 conserved cis-peptide bond; other site 381666018316 glutamate dehydrogenase; Provisional; Region: PRK09414 381666018317 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 381666018318 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 381666018319 NAD(P) binding site [chemical binding]; other site 381666018320 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 381666018321 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 381666018322 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 381666018323 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 381666018324 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 381666018325 NAD(P) binding site [chemical binding]; other site 381666018326 catalytic residues [active] 381666018327 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 381666018328 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 381666018329 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 381666018330 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666018331 DNA-binding site [nucleotide binding]; DNA binding site 381666018332 FCD domain; Region: FCD; pfam07729 381666018333 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 381666018334 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 381666018335 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 381666018336 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666018337 Walker A/P-loop; other site 381666018338 ATP binding site [chemical binding]; other site 381666018339 Q-loop/lid; other site 381666018340 ABC transporter signature motif; other site 381666018341 Walker B; other site 381666018342 D-loop; other site 381666018343 H-loop/switch region; other site 381666018344 TOBE domain; Region: TOBE_2; pfam08402 381666018345 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 381666018346 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 381666018347 dimer interface [polypeptide binding]; other site 381666018348 conserved gate region; other site 381666018349 putative PBP binding loops; other site 381666018350 ABC-ATPase subunit interface; other site 381666018351 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 381666018352 dimer interface [polypeptide binding]; other site 381666018353 conserved gate region; other site 381666018354 putative PBP binding loops; other site 381666018355 ABC-ATPase subunit interface; other site 381666018356 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 381666018357 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666018358 catalytic residue [active] 381666018359 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 381666018360 EamA-like transporter family; Region: EamA; pfam00892 381666018361 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 381666018362 hydroxyglutarate oxidase; Provisional; Region: PRK11728 381666018363 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 381666018364 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 381666018365 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 381666018366 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 381666018367 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 381666018368 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 381666018369 putative active site [active] 381666018370 putative substrate binding site [chemical binding]; other site 381666018371 putative cosubstrate binding site; other site 381666018372 catalytic site [active] 381666018373 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 381666018374 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666018375 DNA-binding site [nucleotide binding]; DNA binding site 381666018376 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 381666018377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666018378 homodimer interface [polypeptide binding]; other site 381666018379 catalytic residue [active] 381666018380 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 381666018381 Domain of unknown function (DUF4188); Region: DUF4188; pfam13826 381666018382 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 381666018383 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666018384 NAD(P) binding site [chemical binding]; other site 381666018385 catalytic residues [active] 381666018386 Protein of unknown function (DUF779); Region: DUF779; pfam05610 381666018387 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 381666018388 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 381666018389 Walker A motif; other site 381666018390 ATP binding site [chemical binding]; other site 381666018391 Walker B motif; other site 381666018392 arginine finger; other site 381666018393 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 381666018394 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 381666018395 Transglycosylase; Region: Transgly; pfam00912 381666018396 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 381666018397 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 381666018398 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 381666018399 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 381666018400 transmembrane helices; other site 381666018401 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 381666018402 GTP cyclohydrolase I; Provisional; Region: PLN03044 381666018403 active site 381666018404 Sensors of blue-light using FAD; Region: BLUF; pfam04940 381666018405 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666018406 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 381666018407 active site 381666018408 phosphorylation site [posttranslational modification] 381666018409 intermolecular recognition site; other site 381666018410 dimerization interface [polypeptide binding]; other site 381666018411 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 381666018412 DNA binding residues [nucleotide binding] 381666018413 dimerization interface [polypeptide binding]; other site 381666018414 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 381666018415 dimer interface [polypeptide binding]; other site 381666018416 phosphorylation site [posttranslational modification] 381666018417 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 381666018418 ATP binding site [chemical binding]; other site 381666018419 Mg2+ binding site [ion binding]; other site 381666018420 G-X-G motif; other site 381666018421 Response regulator receiver domain; Region: Response_reg; pfam00072 381666018422 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 381666018423 active site 381666018424 phosphorylation site [posttranslational modification] 381666018425 intermolecular recognition site; other site 381666018426 dimerization interface [polypeptide binding]; other site 381666018427 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 381666018428 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666018429 putative substrate translocation pore; other site 381666018430 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666018431 classical (c) SDRs; Region: SDR_c; cd05233 381666018432 NAD(P) binding site [chemical binding]; other site 381666018433 active site 381666018434 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 381666018435 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666018436 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666018437 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 381666018438 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 381666018439 N-terminal plug; other site 381666018440 ligand-binding site [chemical binding]; other site 381666018441 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 381666018442 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666018443 DNA-binding site [nucleotide binding]; DNA binding site 381666018444 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 381666018445 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666018446 homodimer interface [polypeptide binding]; other site 381666018447 catalytic residue [active] 381666018448 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 381666018449 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 381666018450 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 381666018451 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 381666018452 dimer interface [polypeptide binding]; other site 381666018453 PYR/PP interface [polypeptide binding]; other site 381666018454 TPP binding site [chemical binding]; other site 381666018455 substrate binding site [chemical binding]; other site 381666018456 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 381666018457 TPP-binding site; other site 381666018458 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 381666018459 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666018460 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666018461 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 381666018462 putative substrate binding pocket [chemical binding]; other site 381666018463 dimerization interface [polypeptide binding]; other site 381666018464 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666018465 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666018466 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666018467 putative effector binding pocket; other site 381666018468 dimerization interface [polypeptide binding]; other site 381666018469 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 381666018470 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 381666018471 conserved cys residue [active] 381666018472 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666018473 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666018474 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 381666018475 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666018476 NAD(P) binding site [chemical binding]; other site 381666018477 active site 381666018478 OsmC-like protein; Region: OsmC; cl00767 381666018479 Cupin domain; Region: Cupin_2; pfam07883 381666018480 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 381666018481 Uncharacterized conserved protein [Function unknown]; Region: COG2128 381666018482 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 381666018483 putative substrate translocation pore; other site 381666018484 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666018485 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 381666018486 short chain dehydrogenase; Provisional; Region: PRK06523 381666018487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666018488 NAD(P) binding site [chemical binding]; other site 381666018489 active site 381666018490 SnoaL-like domain; Region: SnoaL_2; pfam12680 381666018491 Predicted transcriptional regulators [Transcription]; Region: COG1733 381666018492 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 381666018493 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 381666018494 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 381666018495 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 381666018496 GDP-binding site [chemical binding]; other site 381666018497 ACT binding site; other site 381666018498 IMP binding site; other site 381666018499 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 381666018500 homotrimer interaction site [polypeptide binding]; other site 381666018501 putative active site [active] 381666018502 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 381666018503 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 381666018504 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666018505 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 381666018506 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 381666018507 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 381666018508 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 381666018509 non-specific DNA binding site [nucleotide binding]; other site 381666018510 salt bridge; other site 381666018511 sequence-specific DNA binding site [nucleotide binding]; other site 381666018512 Cupin domain; Region: Cupin_2; pfam07883 381666018513 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666018514 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 381666018515 intersubunit interface [polypeptide binding]; other site 381666018516 active site 381666018517 Zn2+ binding site [ion binding]; other site 381666018518 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666018519 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666018520 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666018521 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666018522 putative effector binding pocket; other site 381666018523 dimerization interface [polypeptide binding]; other site 381666018524 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666018525 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666018526 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666018527 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 381666018528 NAD(P) binding site [chemical binding]; other site 381666018529 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666018530 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 381666018531 oligomeric interface; other site 381666018532 putative active site [active] 381666018533 homodimer interface [polypeptide binding]; other site 381666018534 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 381666018535 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 381666018536 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 381666018537 dimerization interface [polypeptide binding]; other site 381666018538 ligand binding site [chemical binding]; other site 381666018539 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 381666018540 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666018541 TM-ABC transporter signature motif; other site 381666018542 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 381666018543 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 381666018544 TM-ABC transporter signature motif; other site 381666018545 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666018546 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 381666018547 Walker A/P-loop; other site 381666018548 ATP binding site [chemical binding]; other site 381666018549 Q-loop/lid; other site 381666018550 ABC transporter signature motif; other site 381666018551 Walker B; other site 381666018552 D-loop; other site 381666018553 H-loop/switch region; other site 381666018554 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666018555 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 381666018556 Walker A/P-loop; other site 381666018557 ATP binding site [chemical binding]; other site 381666018558 Q-loop/lid; other site 381666018559 ABC transporter signature motif; other site 381666018560 Walker B; other site 381666018561 D-loop; other site 381666018562 H-loop/switch region; other site 381666018563 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 381666018564 Amidase; Region: Amidase; cl11426 381666018565 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 381666018566 allantoate amidohydrolase; Reviewed; Region: PRK12893 381666018567 active site 381666018568 metal binding site [ion binding]; metal-binding site 381666018569 dimer interface [polypeptide binding]; other site 381666018570 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 381666018571 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 381666018572 non-specific DNA binding site [nucleotide binding]; other site 381666018573 salt bridge; other site 381666018574 sequence-specific DNA binding site [nucleotide binding]; other site 381666018575 Cupin domain; Region: Cupin_2; pfam07883 381666018576 EthD domain; Region: EthD; cl17553 381666018577 Phasin protein; Region: Phasin_2; pfam09361 381666018578 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 381666018579 DNA-binding site [nucleotide binding]; DNA binding site 381666018580 RNA-binding motif; other site 381666018581 Transglycosylase; Region: Transgly; pfam00912 381666018582 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 381666018583 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 381666018584 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 381666018585 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 381666018586 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 381666018587 P-loop; other site 381666018588 Magnesium ion binding site [ion binding]; other site 381666018589 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 381666018590 Magnesium ion binding site [ion binding]; other site 381666018591 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 381666018592 active site 381666018593 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666018594 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 381666018595 TM-ABC transporter signature motif; other site 381666018596 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666018597 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 381666018598 TM-ABC transporter signature motif; other site 381666018599 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666018600 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 381666018601 Walker A/P-loop; other site 381666018602 ATP binding site [chemical binding]; other site 381666018603 Q-loop/lid; other site 381666018604 ABC transporter signature motif; other site 381666018605 Walker B; other site 381666018606 D-loop; other site 381666018607 H-loop/switch region; other site 381666018608 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666018609 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 381666018610 Walker A/P-loop; other site 381666018611 ATP binding site [chemical binding]; other site 381666018612 Q-loop/lid; other site 381666018613 ABC transporter signature motif; other site 381666018614 Walker B; other site 381666018615 D-loop; other site 381666018616 H-loop/switch region; other site 381666018617 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_3; cd06336 381666018618 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 381666018619 putative ligand binding site [chemical binding]; other site 381666018620 FecR protein; Region: FecR; pfam04773 381666018621 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666018622 metal binding site [ion binding]; metal-binding site 381666018623 active site 381666018624 I-site; other site 381666018625 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 381666018626 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 381666018627 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 381666018628 HAMP domain; Region: HAMP; pfam00672 381666018629 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666018630 dimer interface [polypeptide binding]; other site 381666018631 putative CheW interface [polypeptide binding]; other site 381666018632 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 381666018633 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 381666018634 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 381666018635 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 381666018636 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 381666018637 putative binding surface; other site 381666018638 active site 381666018639 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 381666018640 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 381666018641 ATP binding site [chemical binding]; other site 381666018642 Mg2+ binding site [ion binding]; other site 381666018643 G-X-G motif; other site 381666018644 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 381666018645 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 381666018646 Response regulator receiver domain; Region: Response_reg; pfam00072 381666018647 active site 381666018648 phosphorylation site [posttranslational modification] 381666018649 intermolecular recognition site; other site 381666018650 dimerization interface [polypeptide binding]; other site 381666018651 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 381666018652 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 381666018653 phosphorylation site [posttranslational modification] 381666018654 intermolecular recognition site; other site 381666018655 CheB methylesterase; Region: CheB_methylest; pfam01339 381666018656 Response regulator receiver domain; Region: Response_reg; pfam00072 381666018657 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 381666018658 active site 381666018659 phosphorylation site [posttranslational modification] 381666018660 intermolecular recognition site; other site 381666018661 dimerization interface [polypeptide binding]; other site 381666018662 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 381666018663 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666018664 metal binding site [ion binding]; metal-binding site 381666018665 active site 381666018666 I-site; other site 381666018667 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 381666018668 Transcriptional regulator PadR-like family; Region: PadR; cl17335 381666018669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 381666018670 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 381666018671 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 381666018672 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 381666018673 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 381666018674 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666018675 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 381666018676 tetramerization interface [polypeptide binding]; other site 381666018677 NAD(P) binding site [chemical binding]; other site 381666018678 catalytic residues [active] 381666018679 Predicted small integral membrane protein [Function unknown]; Region: COG5605 381666018680 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 381666018681 Subunit I/III interface [polypeptide binding]; other site 381666018682 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 381666018683 Subunit I/III interface [polypeptide binding]; other site 381666018684 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 381666018685 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 381666018686 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 381666018687 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 381666018688 Cytochrome c; Region: Cytochrom_C; pfam00034 381666018689 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 381666018690 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666018691 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666018692 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 381666018693 dimerization interface [polypeptide binding]; other site 381666018694 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666018695 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 381666018696 putative substrate translocation pore; other site 381666018697 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 381666018698 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 381666018699 active site 381666018700 Zn binding site [ion binding]; other site 381666018701 allantoate amidohydrolase; Reviewed; Region: PRK12893 381666018702 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 381666018703 active site 381666018704 metal binding site [ion binding]; metal-binding site 381666018705 dimer interface [polypeptide binding]; other site 381666018706 Rubredoxin [Energy production and conversion]; Region: COG1773 381666018707 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 381666018708 iron binding site [ion binding]; other site 381666018709 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 381666018710 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 381666018711 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 381666018712 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 381666018713 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 381666018714 ligand binding site [chemical binding]; other site 381666018715 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666018716 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 381666018717 putative substrate translocation pore; other site 381666018718 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 381666018719 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666018720 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 381666018721 ligand binding site [chemical binding]; other site 381666018722 flexible hinge region; other site 381666018723 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 381666018724 putative switch regulator; other site 381666018725 non-specific DNA interactions [nucleotide binding]; other site 381666018726 DNA binding site [nucleotide binding] 381666018727 sequence specific DNA binding site [nucleotide binding]; other site 381666018728 putative cAMP binding site [chemical binding]; other site 381666018729 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 381666018730 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 381666018731 Transposase; Region: HTH_Tnp_1; pfam01527 381666018732 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666018733 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666018734 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 381666018735 dimerization interface [polypeptide binding]; other site 381666018736 transcriptional regulator RcsB; Provisional; Region: PRK10840 381666018737 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 381666018738 active site 381666018739 phosphorylation site [posttranslational modification] 381666018740 intermolecular recognition site; other site 381666018741 dimerization interface [polypeptide binding]; other site 381666018742 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 381666018743 DNA binding residues [nucleotide binding] 381666018744 dimerization interface [polypeptide binding]; other site 381666018745 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666018746 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 381666018747 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 381666018748 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666018749 putative substrate translocation pore; other site 381666018750 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 381666018751 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 381666018752 dimer interface [polypeptide binding]; other site 381666018753 phosphorylation site [posttranslational modification] 381666018754 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 381666018755 ATP binding site [chemical binding]; other site 381666018756 Mg2+ binding site [ion binding]; other site 381666018757 G-X-G motif; other site 381666018758 Response regulator receiver domain; Region: Response_reg; pfam00072 381666018759 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 381666018760 active site 381666018761 phosphorylation site [posttranslational modification] 381666018762 intermolecular recognition site; other site 381666018763 dimerization interface [polypeptide binding]; other site 381666018764 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666018765 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 381666018766 DNA binding residues [nucleotide binding] 381666018767 dimerization interface [polypeptide binding]; other site 381666018768 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666018769 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 381666018770 active site 381666018771 phosphorylation site [posttranslational modification] 381666018772 intermolecular recognition site; other site 381666018773 dimerization interface [polypeptide binding]; other site 381666018774 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 381666018775 DNA binding residues [nucleotide binding] 381666018776 dimerization interface [polypeptide binding]; other site 381666018777 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 381666018778 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 381666018779 dimer interface [polypeptide binding]; other site 381666018780 phosphorylation site [posttranslational modification] 381666018781 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 381666018782 ATP binding site [chemical binding]; other site 381666018783 Mg2+ binding site [ion binding]; other site 381666018784 G-X-G motif; other site 381666018785 Response regulator receiver domain; Region: Response_reg; pfam00072 381666018786 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 381666018787 active site 381666018788 phosphorylation site [posttranslational modification] 381666018789 intermolecular recognition site; other site 381666018790 dimerization interface [polypeptide binding]; other site 381666018791 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 381666018792 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 381666018793 PapC N-terminal domain; Region: PapC_N; pfam13954 381666018794 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 381666018795 PapC C-terminal domain; Region: PapC_C; pfam13953 381666018796 putative chaperone protein EcpD; Provisional; Region: PRK09926 381666018797 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 381666018798 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 381666018799 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 381666018800 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 381666018801 dimerization interface [polypeptide binding]; other site 381666018802 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 381666018803 ATP binding site [chemical binding]; other site 381666018804 Mg2+ binding site [ion binding]; other site 381666018805 G-X-G motif; other site 381666018806 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666018807 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 381666018808 active site 381666018809 phosphorylation site [posttranslational modification] 381666018810 intermolecular recognition site; other site 381666018811 dimerization interface [polypeptide binding]; other site 381666018812 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 381666018813 DNA binding site [nucleotide binding] 381666018814 enterobactin receptor protein; Provisional; Region: PRK13483 381666018815 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 381666018816 N-terminal plug; other site 381666018817 ligand-binding site [chemical binding]; other site 381666018818 Trehalase; Region: Trehalase; cl17346 381666018819 trehalase; Provisional; Region: treF; PRK13270 381666018820 putative transporter; Provisional; Region: PRK10504 381666018821 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 381666018822 putative substrate translocation pore; other site 381666018823 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 381666018824 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666018825 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 381666018826 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 381666018827 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 381666018828 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07768 381666018829 acyl-activating enzyme (AAE) consensus motif; other site 381666018830 active site 381666018831 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 381666018832 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 381666018833 putative acyl-acceptor binding pocket; other site 381666018834 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 381666018835 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 381666018836 Ligand Binding Site [chemical binding]; other site 381666018837 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 381666018838 Transposase domain (DUF772); Region: DUF772; pfam05598 381666018839 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 381666018840 RHS Repeat; Region: RHS_repeat; cl11982 381666018841 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 381666018842 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 381666018843 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 381666018844 RHS Repeat; Region: RHS_repeat; pfam05593 381666018845 RHS Repeat; Region: RHS_repeat; cl11982 381666018846 RHS Repeat; Region: RHS_repeat; cl11982 381666018847 RHS protein; Region: RHS; pfam03527 381666018848 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 381666018849 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 381666018850 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 381666018851 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 381666018852 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 381666018853 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 381666018854 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 381666018855 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 381666018856 N-terminal plug; other site 381666018857 ligand-binding site [chemical binding]; other site 381666018858 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 381666018859 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 381666018860 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 381666018861 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666018862 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 381666018863 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666018864 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666018865 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 381666018866 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666018867 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 381666018868 putative dimerization interface [polypeptide binding]; other site 381666018869 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666018870 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 381666018871 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 381666018872 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 381666018873 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 381666018874 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 381666018875 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666018876 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 381666018877 Walker A/P-loop; other site 381666018878 ATP binding site [chemical binding]; other site 381666018879 Q-loop/lid; other site 381666018880 ABC transporter signature motif; other site 381666018881 Walker B; other site 381666018882 D-loop; other site 381666018883 H-loop/switch region; other site 381666018884 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 381666018885 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 381666018886 N-terminal plug; other site 381666018887 ligand-binding site [chemical binding]; other site 381666018888 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 381666018889 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666018890 dimer interface [polypeptide binding]; other site 381666018891 putative CheW interface [polypeptide binding]; other site 381666018892 hypothetical protein; Provisional; Region: PRK07483 381666018893 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 381666018894 inhibitor-cofactor binding pocket; inhibition site 381666018895 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666018896 catalytic residue [active] 381666018897 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 381666018898 Amidohydrolase family; Region: Amidohydro_3; pfam07969 381666018899 active site 381666018900 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 381666018901 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666018902 amidase; Provisional; Region: PRK09201 381666018903 Amidase; Region: Amidase; cl11426 381666018904 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 381666018905 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 381666018906 putative substrate translocation pore; other site 381666018907 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 381666018908 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 381666018909 non-specific DNA binding site [nucleotide binding]; other site 381666018910 salt bridge; other site 381666018911 sequence-specific DNA binding site [nucleotide binding]; other site 381666018912 PAS domain S-box; Region: sensory_box; TIGR00229 381666018913 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 381666018914 heme pocket [chemical binding]; other site 381666018915 putative active site [active] 381666018916 PAS fold; Region: PAS_3; pfam08447 381666018917 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 381666018918 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 381666018919 [2Fe-2S] cluster binding site [ion binding]; other site 381666018920 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_2; cd08886 381666018921 putative alpha subunit interface [polypeptide binding]; other site 381666018922 putative active site [active] 381666018923 putative substrate binding site [chemical binding]; other site 381666018924 Fe binding site [ion binding]; other site 381666018925 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 381666018926 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666018927 tetramerization interface [polypeptide binding]; other site 381666018928 NAD(P) binding site [chemical binding]; other site 381666018929 catalytic residues [active] 381666018930 choline dehydrogenase; Validated; Region: PRK02106 381666018931 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 381666018932 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; pfam09694 381666018933 Amino acid permease; Region: AA_permease_2; pfam13520 381666018934 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 381666018935 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 381666018936 FMN-binding pocket [chemical binding]; other site 381666018937 flavin binding motif; other site 381666018938 phosphate binding motif [ion binding]; other site 381666018939 beta-alpha-beta structure motif; other site 381666018940 NAD binding pocket [chemical binding]; other site 381666018941 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 381666018942 catalytic loop [active] 381666018943 iron binding site [ion binding]; other site 381666018944 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 381666018945 putative hydrophobic ligand binding site [chemical binding]; other site 381666018946 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 381666018947 dimerization interface [polypeptide binding]; other site 381666018948 putative DNA binding site [nucleotide binding]; other site 381666018949 putative Zn2+ binding site [ion binding]; other site 381666018950 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666018951 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666018952 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 381666018953 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 381666018954 Walker A/P-loop; other site 381666018955 ATP binding site [chemical binding]; other site 381666018956 Q-loop/lid; other site 381666018957 ABC transporter signature motif; other site 381666018958 Walker B; other site 381666018959 D-loop; other site 381666018960 H-loop/switch region; other site 381666018961 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 381666018962 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 381666018963 FtsX-like permease family; Region: FtsX; pfam02687 381666018964 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 381666018965 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 381666018966 FtsX-like permease family; Region: FtsX; pfam02687 381666018967 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 381666018968 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 381666018969 CDP-diacylglycerol pyrophosphatase; Provisional; Region: PRK05471 381666018970 Electron transfer DM13; Region: DM13; pfam10517 381666018971 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666018972 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666018973 trimer interface [polypeptide binding]; other site 381666018974 eyelet of channel; other site 381666018975 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 381666018976 Transglycosylase; Region: Transgly; pfam00912 381666018977 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 381666018978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 381666018979 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 381666018980 Cupin domain; Region: Cupin_2; cl17218 381666018981 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666018982 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666018983 Hemerythrin family; Region: Hemerythrin-like; cl15774 381666018984 Fe binding site [ion binding]; other site 381666018985 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 381666018986 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666018987 enoyl-CoA hydratase; Provisional; Region: PRK06688 381666018988 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 381666018989 substrate binding site [chemical binding]; other site 381666018990 oxyanion hole (OAH) forming residues; other site 381666018991 trimer interface [polypeptide binding]; other site 381666018992 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666018993 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666018994 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666018995 active site 381666018996 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666018997 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666018998 active site 381666018999 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666019000 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666019001 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 381666019002 Double zinc ribbon; Region: DZR; pfam12773 381666019003 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 381666019004 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 381666019005 cyclase homology domain; Region: CHD; cd07302 381666019006 nucleotidyl binding site; other site 381666019007 metal binding site [ion binding]; metal-binding site 381666019008 dimer interface [polypeptide binding]; other site 381666019009 AAA ATPase domain; Region: AAA_16; pfam13191 381666019010 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 381666019011 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 381666019012 FMN binding site [chemical binding]; other site 381666019013 active site 381666019014 substrate binding site [chemical binding]; other site 381666019015 catalytic residue [active] 381666019016 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 381666019017 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 381666019018 active site 381666019019 catalytic tetrad [active] 381666019020 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666019021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666019022 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 381666019023 putative effector binding pocket; other site 381666019024 dimerization interface [polypeptide binding]; other site 381666019025 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 381666019026 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 381666019027 FMN binding site [chemical binding]; other site 381666019028 active site 381666019029 substrate binding site [chemical binding]; other site 381666019030 catalytic residue [active] 381666019031 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 381666019032 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 381666019033 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 381666019034 active site 381666019035 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 381666019036 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 381666019037 putative NADP binding site [chemical binding]; other site 381666019038 putative substrate binding site [chemical binding]; other site 381666019039 active site 381666019040 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 381666019041 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 381666019042 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 381666019043 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 381666019044 FeS/SAM binding site; other site 381666019045 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 381666019046 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 381666019047 ligand binding site; other site 381666019048 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 381666019049 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 381666019050 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 381666019051 B12 binding site [chemical binding]; other site 381666019052 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 381666019053 FeS/SAM binding site; other site 381666019054 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 381666019055 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 381666019056 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 381666019057 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 381666019058 VacJ like lipoprotein; Region: VacJ; cl01073 381666019059 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 381666019060 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 381666019061 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 381666019062 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 381666019063 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 381666019064 CopC domain; Region: CopC; pfam04234 381666019065 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 381666019066 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 381666019067 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 381666019068 Multicopper oxidase; Region: Cu-oxidase; pfam00394 381666019069 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 381666019070 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 381666019071 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 381666019072 active site 381666019073 phosphorylation site [posttranslational modification] 381666019074 intermolecular recognition site; other site 381666019075 dimerization interface [polypeptide binding]; other site 381666019076 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 381666019077 DNA binding site [nucleotide binding] 381666019078 sensor kinase CusS; Provisional; Region: PRK09835 381666019079 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 381666019080 dimerization interface [polypeptide binding]; other site 381666019081 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 381666019082 dimer interface [polypeptide binding]; other site 381666019083 phosphorylation site [posttranslational modification] 381666019084 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 381666019085 ATP binding site [chemical binding]; other site 381666019086 Mg2+ binding site [ion binding]; other site 381666019087 G-X-G motif; other site 381666019088 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666019089 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666019090 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 381666019091 dimerization interface [polypeptide binding]; other site 381666019092 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 381666019093 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 381666019094 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 381666019095 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 381666019096 sequence-specific DNA binding site [nucleotide binding]; other site 381666019097 salt bridge; other site 381666019098 Cupin domain; Region: Cupin_2; pfam07883 381666019099 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 381666019100 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 381666019101 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 381666019102 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 381666019103 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 381666019104 active site 381666019105 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 381666019106 domain_subunit interface; other site 381666019107 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 381666019108 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 381666019109 active site 381666019110 FMN binding site [chemical binding]; other site 381666019111 substrate binding site [chemical binding]; other site 381666019112 3Fe-4S cluster binding site [ion binding]; other site 381666019113 CHASE2 domain; Region: CHASE2; pfam05226 381666019114 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 381666019115 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 381666019116 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 381666019117 dimer interface [polypeptide binding]; other site 381666019118 phosphorylation site [posttranslational modification] 381666019119 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 381666019120 ATP binding site [chemical binding]; other site 381666019121 Mg2+ binding site [ion binding]; other site 381666019122 G-X-G motif; other site 381666019123 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 381666019124 FecR protein; Region: FecR; pfam04773 381666019125 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666019126 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 381666019127 active site 381666019128 phosphorylation site [posttranslational modification] 381666019129 intermolecular recognition site; other site 381666019130 dimerization interface [polypeptide binding]; other site 381666019131 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 381666019132 DNA binding site [nucleotide binding] 381666019133 Predicted membrane protein [Function unknown]; Region: COG4267 381666019134 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_3; cd03813 381666019135 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666019136 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 381666019137 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 381666019138 GAF domain; Region: GAF_3; pfam13492 381666019139 Predicted integral membrane protein [Function unknown]; Region: COG5616 381666019140 Tetratricopeptide repeat; Region: TPR_15; pfam13429 381666019141 Uncharacterized conserved protein [Function unknown]; Region: COG3868 381666019142 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 381666019143 putative active site [active] 381666019144 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 381666019145 DNA-binding site [nucleotide binding]; DNA binding site 381666019146 RNA-binding motif; other site 381666019147 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 381666019148 catalytic residues [active] 381666019149 substrate binding pocket [chemical binding]; other site 381666019150 substrate-Mg2+ binding site; other site 381666019151 aspartate-rich region 1; other site 381666019152 aspartate-rich region 2; other site 381666019153 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 381666019154 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 381666019155 Active site cavity [active] 381666019156 catalytic acid [active] 381666019157 hypothetical protein; Provisional; Region: PRK07077 381666019158 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 381666019159 putative chaperone; Provisional; Region: PRK11678 381666019160 nucleotide binding site [chemical binding]; other site 381666019161 putative NEF/HSP70 interaction site [polypeptide binding]; other site 381666019162 SBD interface [polypeptide binding]; other site 381666019163 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666019164 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666019165 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 381666019166 active site 381666019167 oxalacetate binding site [chemical binding]; other site 381666019168 citrylCoA binding site [chemical binding]; other site 381666019169 coenzyme A binding site [chemical binding]; other site 381666019170 catalytic triad [active] 381666019171 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 381666019172 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666019173 metal binding site [ion binding]; metal-binding site 381666019174 active site 381666019175 I-site; other site 381666019176 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666019177 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 381666019178 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666019179 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666019180 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666019181 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 381666019182 S-adenosylmethionine binding site [chemical binding]; other site 381666019183 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 381666019184 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 381666019185 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 381666019186 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 381666019187 Walker A/P-loop; other site 381666019188 ATP binding site [chemical binding]; other site 381666019189 Q-loop/lid; other site 381666019190 ABC transporter signature motif; other site 381666019191 Walker B; other site 381666019192 D-loop; other site 381666019193 H-loop/switch region; other site 381666019194 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 381666019195 NMT1-like family; Region: NMT1_2; pfam13379 381666019196 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666019197 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 381666019198 active site 381666019199 iron coordination sites [ion binding]; other site 381666019200 Cytochrome c; Region: Cytochrom_C; pfam00034 381666019201 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 381666019202 Moco binding site; other site 381666019203 metal coordination site [ion binding]; other site 381666019204 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 381666019205 NMT1/THI5 like; Region: NMT1; pfam09084 381666019206 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 381666019207 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 381666019208 ABC-ATPase subunit interface; other site 381666019209 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 381666019210 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 381666019211 dimer interface [polypeptide binding]; other site 381666019212 conserved gate region; other site 381666019213 putative PBP binding loops; other site 381666019214 ABC-ATPase subunit interface; other site 381666019215 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666019216 Walker A/P-loop; other site 381666019217 ATP binding site [chemical binding]; other site 381666019218 Q-loop/lid; other site 381666019219 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666019220 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 381666019221 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 381666019222 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 381666019223 active site 381666019224 non-prolyl cis peptide bond; other site 381666019225 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 381666019226 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 381666019227 homodimer interface [polypeptide binding]; other site 381666019228 substrate-cofactor binding pocket; other site 381666019229 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666019230 catalytic residue [active] 381666019231 Predicted integral membrane protein [Function unknown]; Region: COG0392 381666019232 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 381666019233 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 381666019234 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 381666019235 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 381666019236 tetramer interface [polypeptide binding]; other site 381666019237 TPP-binding site [chemical binding]; other site 381666019238 heterodimer interface [polypeptide binding]; other site 381666019239 phosphorylation loop region [posttranslational modification] 381666019240 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 381666019241 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 381666019242 alpha subunit interface [polypeptide binding]; other site 381666019243 TPP binding site [chemical binding]; other site 381666019244 heterodimer interface [polypeptide binding]; other site 381666019245 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 381666019246 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 381666019247 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 381666019248 E3 interaction surface; other site 381666019249 lipoyl attachment site [posttranslational modification]; other site 381666019250 e3 binding domain; Region: E3_binding; pfam02817 381666019251 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 381666019252 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 381666019253 putative transporter; Provisional; Region: PRK11660 381666019254 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 381666019255 Sulfate transporter family; Region: Sulfate_transp; pfam00916 381666019256 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 381666019257 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 381666019258 Ligand Binding Site [chemical binding]; other site 381666019259 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 381666019260 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 381666019261 dimer interface [polypeptide binding]; other site 381666019262 decamer (pentamer of dimers) interface [polypeptide binding]; other site 381666019263 catalytic triad [active] 381666019264 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 381666019265 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 381666019266 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 381666019267 active site 381666019268 phosphorylation site [posttranslational modification] 381666019269 intermolecular recognition site; other site 381666019270 dimerization interface [polypeptide binding]; other site 381666019271 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666019272 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666019273 DNA-binding site [nucleotide binding]; DNA binding site 381666019274 UTRA domain; Region: UTRA; pfam07702 381666019275 putative oxidoreductase; Provisional; Region: PRK08275 381666019276 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 381666019277 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 381666019278 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 381666019279 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 381666019280 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 381666019281 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 381666019282 substrate binding pocket [chemical binding]; other site 381666019283 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 381666019284 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 381666019285 putative PBP binding loops; other site 381666019286 dimer interface [polypeptide binding]; other site 381666019287 ABC-ATPase subunit interface; other site 381666019288 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 381666019289 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 381666019290 Walker A/P-loop; other site 381666019291 ATP binding site [chemical binding]; other site 381666019292 Q-loop/lid; other site 381666019293 ABC transporter signature motif; other site 381666019294 Walker B; other site 381666019295 D-loop; other site 381666019296 H-loop/switch region; other site 381666019297 HEAT repeats; Region: HEAT_2; pfam13646 381666019298 HEAT repeats; Region: HEAT_2; pfam13646 381666019299 HEAT repeats; Region: HEAT_2; pfam13646 381666019300 Protein of unknown function (DUF971); Region: DUF971; pfam06155 381666019301 Ubiquitin-like proteins; Region: UBQ; cl00155 381666019302 charged pocket; other site 381666019303 hydrophobic patch; other site 381666019304 BNR repeat-like domain; Region: BNR_2; pfam13088 381666019305 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 381666019306 Sulfate transporter family; Region: Sulfate_transp; pfam00916 381666019307 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 381666019308 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666019309 H-NS histone family; Region: Histone_HNS; pfam00816 381666019310 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 381666019311 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666019312 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666019313 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666019314 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666019315 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666019316 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666019317 putative effector binding pocket; other site 381666019318 dimerization interface [polypeptide binding]; other site 381666019319 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 381666019320 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 381666019321 putative substrate translocation pore; other site 381666019322 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 381666019323 NnrS protein; Region: NnrS; pfam05940 381666019324 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 381666019325 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 381666019326 putative substrate translocation pore; other site 381666019327 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 381666019328 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 381666019329 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 381666019330 [4Fe-4S] binding site [ion binding]; other site 381666019331 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 381666019332 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 381666019333 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 381666019334 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 381666019335 molybdopterin cofactor binding site; other site 381666019336 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 381666019337 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 381666019338 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 381666019339 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 381666019340 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 381666019341 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 381666019342 active site clefts [active] 381666019343 zinc binding site [ion binding]; other site 381666019344 dimer interface [polypeptide binding]; other site 381666019345 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 381666019346 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 381666019347 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666019348 transcriptional activator TtdR; Provisional; Region: PRK09801 381666019349 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 381666019350 putative effector binding pocket; other site 381666019351 putative dimerization interface [polypeptide binding]; other site 381666019352 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666019353 isopropylmalate isomerase large subunit; Provisional; Region: PRK12466 381666019354 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 381666019355 substrate binding site [chemical binding]; other site 381666019356 ligand binding site [chemical binding]; other site 381666019357 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 381666019358 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 381666019359 substrate binding site [chemical binding]; other site 381666019360 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 381666019361 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 381666019362 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 381666019363 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 381666019364 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 381666019365 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 381666019366 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666019367 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666019368 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666019369 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 381666019370 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 381666019371 FeS/SAM binding site; other site 381666019372 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 381666019373 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 381666019374 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 381666019375 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 381666019376 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 381666019377 active site 381666019378 SAM binding site [chemical binding]; other site 381666019379 homodimer interface [polypeptide binding]; other site 381666019380 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 381666019381 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 381666019382 Helix-turn-helix domain; Region: HTH_18; pfam12833 381666019383 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666019384 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 381666019385 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 381666019386 TAP-like protein; Region: Abhydrolase_4; pfam08386 381666019387 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 381666019388 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 381666019389 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 381666019390 tetramer interface [polypeptide binding]; other site 381666019391 active site 381666019392 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 381666019393 heterodimer interface [polypeptide binding]; other site 381666019394 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 381666019395 active site 381666019396 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 381666019397 multimer interface [polypeptide binding]; other site 381666019398 heterodimer interface [polypeptide binding]; other site 381666019399 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 381666019400 active site 381666019401 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666019402 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666019403 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 381666019404 dimerization interface [polypeptide binding]; other site 381666019405 benzoate transport; Region: 2A0115; TIGR00895 381666019406 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 381666019407 putative substrate translocation pore; other site 381666019408 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 381666019409 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 381666019410 HAMP domain; Region: HAMP; pfam00672 381666019411 dimerization interface [polypeptide binding]; other site 381666019412 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666019413 dimer interface [polypeptide binding]; other site 381666019414 putative CheW interface [polypeptide binding]; other site 381666019415 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666019416 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666019417 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666019418 putative effector binding pocket; other site 381666019419 dimerization interface [polypeptide binding]; other site 381666019420 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 381666019421 Histidine kinase; Region: HisKA_3; pfam07730 381666019422 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 381666019423 ATP binding site [chemical binding]; other site 381666019424 Mg2+ binding site [ion binding]; other site 381666019425 G-X-G motif; other site 381666019426 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666019427 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 381666019428 active site 381666019429 phosphorylation site [posttranslational modification] 381666019430 intermolecular recognition site; other site 381666019431 dimerization interface [polypeptide binding]; other site 381666019432 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 381666019433 DNA binding residues [nucleotide binding] 381666019434 dimerization interface [polypeptide binding]; other site 381666019435 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 381666019436 Putative periplasmic lipoprotein; Region: DUF1425; cl12345 381666019437 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 381666019438 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 381666019439 BON domain; Region: BON; pfam04972 381666019440 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666019441 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666019442 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_5; cd08426 381666019443 putative dimerization interface [polypeptide binding]; other site 381666019444 amidase; Provisional; Region: PRK07486 381666019445 Amidase; Region: Amidase; cl11426 381666019446 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666019447 RTX toxin acyltransferase family; Region: HlyC; pfam02794 381666019448 Outer membrane efflux protein; Region: OEP; pfam02321 381666019449 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 381666019450 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 381666019451 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666019452 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 381666019453 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 381666019454 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666019455 Walker A/P-loop; other site 381666019456 ATP binding site [chemical binding]; other site 381666019457 Q-loop/lid; other site 381666019458 ABC transporter signature motif; other site 381666019459 Walker B; other site 381666019460 D-loop; other site 381666019461 H-loop/switch region; other site 381666019462 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 381666019463 EF-hand domain pair; Region: EF_hand_5; pfam13499 381666019464 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 381666019465 Ca2+ binding site [ion binding]; other site 381666019466 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 381666019467 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 381666019468 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666019469 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666019470 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 381666019471 dimerization interface [polypeptide binding]; other site 381666019472 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 381666019473 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 381666019474 homotrimer interaction site [polypeptide binding]; other site 381666019475 putative active site [active] 381666019476 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 381666019477 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 381666019478 DNA binding residues [nucleotide binding] 381666019479 dimer interface [polypeptide binding]; other site 381666019480 [2Fe-2S] cluster binding site [ion binding]; other site 381666019481 Cytochrome c2 [Energy production and conversion]; Region: COG3474 381666019482 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 381666019483 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 381666019484 catalytic residues [active] 381666019485 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 381666019486 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 381666019487 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 381666019488 Hemerythrin-like domain; Region: Hr-like; cd12108 381666019489 Fe binding site [ion binding]; other site 381666019490 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 381666019491 GAF domain; Region: GAF; cl17456 381666019492 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 381666019493 Walker A motif; other site 381666019494 ATP binding site [chemical binding]; other site 381666019495 Walker B motif; other site 381666019496 arginine finger; other site 381666019497 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 381666019498 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 381666019499 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666019500 metal binding site [ion binding]; metal-binding site 381666019501 active site 381666019502 I-site; other site 381666019503 SCP-2 sterol transfer family; Region: SCP2; cl01225 381666019504 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 381666019505 putative protease; Provisional; Region: PRK15447 381666019506 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 381666019507 Peptidase family U32; Region: Peptidase_U32; pfam01136 381666019508 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 381666019509 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 381666019510 FMN binding site [chemical binding]; other site 381666019511 substrate binding site [chemical binding]; other site 381666019512 putative catalytic residue [active] 381666019513 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 381666019514 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 381666019515 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 381666019516 dimerization interface [polypeptide binding]; other site 381666019517 GAF domain; Region: GAF_3; pfam13492 381666019518 Histidine kinase; Region: HisKA_3; pfam07730 381666019519 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 381666019520 ATP binding site [chemical binding]; other site 381666019521 Mg2+ binding site [ion binding]; other site 381666019522 G-X-G motif; other site 381666019523 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666019524 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 381666019525 active site 381666019526 phosphorylation site [posttranslational modification] 381666019527 intermolecular recognition site; other site 381666019528 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 381666019529 DNA binding residues [nucleotide binding] 381666019530 dimerization interface [polypeptide binding]; other site 381666019531 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 381666019532 Putative ParB-like nuclease; Region: ParBc_2; cl17538 381666019533 short chain dehydrogenase; Provisional; Region: PRK06701 381666019534 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 381666019535 NAD binding site [chemical binding]; other site 381666019536 metal binding site [ion binding]; metal-binding site 381666019537 active site 381666019538 BON domain; Region: BON; pfam04972 381666019539 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 381666019540 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666019541 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 381666019542 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 381666019543 Low affinity iron permease; Region: Iron_permease; pfam04120 381666019544 PRC-barrel domain; Region: PRC; pfam05239 381666019545 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666019546 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 381666019547 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 381666019548 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 381666019549 active site 381666019550 phosphorylation site [posttranslational modification] 381666019551 intermolecular recognition site; other site 381666019552 dimerization interface [polypeptide binding]; other site 381666019553 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 381666019554 Walker A motif; other site 381666019555 ATP binding site [chemical binding]; other site 381666019556 Walker B motif; other site 381666019557 arginine finger; other site 381666019558 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 381666019559 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 381666019560 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 381666019561 Walker A motif; other site 381666019562 ATP binding site [chemical binding]; other site 381666019563 Walker B motif; other site 381666019564 arginine finger; other site 381666019565 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 381666019566 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 381666019567 PAS domain; Region: PAS_9; pfam13426 381666019568 putative active site [active] 381666019569 heme pocket [chemical binding]; other site 381666019570 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 381666019571 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 381666019572 putative active site [active] 381666019573 heme pocket [chemical binding]; other site 381666019574 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 381666019575 dimer interface [polypeptide binding]; other site 381666019576 phosphorylation site [posttranslational modification] 381666019577 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 381666019578 ATP binding site [chemical binding]; other site 381666019579 Mg2+ binding site [ion binding]; other site 381666019580 G-X-G motif; other site 381666019581 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 381666019582 Response regulator receiver domain; Region: Response_reg; pfam00072 381666019583 active site 381666019584 phosphorylation site [posttranslational modification] 381666019585 intermolecular recognition site; other site 381666019586 dimerization interface [polypeptide binding]; other site 381666019587 short chain dehydrogenase; Provisional; Region: PRK07109 381666019588 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 381666019589 putative NAD(P) binding site [chemical binding]; other site 381666019590 active site 381666019591 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 381666019592 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 381666019593 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 381666019594 active site 381666019595 DNA binding site [nucleotide binding] 381666019596 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 381666019597 DNA binding site [nucleotide binding] 381666019598 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 381666019599 nucleotide binding site [chemical binding]; other site 381666019600 Response regulator receiver domain; Region: Response_reg; pfam00072 381666019601 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 381666019602 active site 381666019603 phosphorylation site [posttranslational modification] 381666019604 intermolecular recognition site; other site 381666019605 dimerization interface [polypeptide binding]; other site 381666019606 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 381666019607 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 381666019608 putative active site [active] 381666019609 heme pocket [chemical binding]; other site 381666019610 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 381666019611 dimer interface [polypeptide binding]; other site 381666019612 phosphorylation site [posttranslational modification] 381666019613 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 381666019614 ATP binding site [chemical binding]; other site 381666019615 Mg2+ binding site [ion binding]; other site 381666019616 G-X-G motif; other site 381666019617 Response regulator receiver domain; Region: Response_reg; pfam00072 381666019618 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 381666019619 active site 381666019620 phosphorylation site [posttranslational modification] 381666019621 intermolecular recognition site; other site 381666019622 dimerization interface [polypeptide binding]; other site 381666019623 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 381666019624 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 381666019625 putative DNA binding site [nucleotide binding]; other site 381666019626 putative homodimer interface [polypeptide binding]; other site 381666019627 BON domain; Region: BON; pfam04972 381666019628 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 381666019629 Sm and related proteins; Region: Sm_like; cl00259 381666019630 heptamer interface [polypeptide binding]; other site 381666019631 Sm1 motif; other site 381666019632 hexamer interface [polypeptide binding]; other site 381666019633 RNA binding site [nucleotide binding]; other site 381666019634 Sm2 motif; other site 381666019635 flagellin; Validated; Region: PRK06819 381666019636 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 381666019637 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 381666019638 FlaG protein; Region: FlaG; pfam03646 381666019639 flagellar capping protein; Reviewed; Region: fliD; PRK08032 381666019640 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 381666019641 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 381666019642 flagellar protein FliS; Validated; Region: fliS; PRK05685 381666019643 Flagellar protein FliT; Region: FliT; pfam05400 381666019644 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 381666019645 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 381666019646 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 381666019647 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 381666019648 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 381666019649 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 381666019650 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 381666019651 FliG C-terminal domain; Region: FliG_C; pfam01706 381666019652 flagellar assembly protein H; Validated; Region: fliH; PRK05687 381666019653 Flagellar assembly protein FliH; Region: FliH; pfam02108 381666019654 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 381666019655 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 381666019656 Walker A motif/ATP binding site; other site 381666019657 Walker B motif; other site 381666019658 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 381666019659 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 381666019660 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 381666019661 YcfA-like protein; Region: YcfA; pfam07927 381666019662 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 381666019663 non-specific DNA binding site [nucleotide binding]; other site 381666019664 salt bridge; other site 381666019665 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 381666019666 sequence-specific DNA binding site [nucleotide binding]; other site 381666019667 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 381666019668 Uncharacterized conserved protein [Function unknown]; Region: COG3791 381666019669 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 381666019670 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 381666019671 dimer interface [polypeptide binding]; other site 381666019672 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666019673 catalytic residue [active] 381666019674 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 381666019675 active site 381666019676 DNA binding site [nucleotide binding] 381666019677 Int/Topo IB signature motif; other site 381666019678 Helix-turn-helix domain; Region: HTH_17; pfam12728 381666019679 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 381666019680 AAA domain; Region: AAA_25; pfam13481 381666019681 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 381666019682 Walker A motif; other site 381666019683 ATP binding site [chemical binding]; other site 381666019684 Walker B motif; other site 381666019685 RES domain; Region: RES; pfam08808 381666019686 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 381666019687 active site 381666019688 catalytic site [active] 381666019689 substrate binding site [chemical binding]; other site 381666019690 AAA domain; Region: AAA_21; pfam13304 381666019691 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 381666019692 Protein of unknown function (DUF938); Region: DUF938; pfam06080 381666019693 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 381666019694 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 381666019695 Uncharacterized conserved protein [Function unknown]; Region: COG1739 381666019696 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 381666019697 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 381666019698 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 381666019699 catalytic loop [active] 381666019700 iron binding site [ion binding]; other site 381666019701 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 381666019702 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 381666019703 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 381666019704 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 381666019705 active site 381666019706 zinc binding site [ion binding]; other site 381666019707 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 381666019708 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 381666019709 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 381666019710 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 381666019711 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 381666019712 HlyD family secretion protein; Region: HlyD_3; pfam13437 381666019713 Outer membrane efflux protein; Region: OEP; pfam02321 381666019714 Putative zinc-finger; Region: zf-HC2; pfam13490 381666019715 RNA polymerase sigma factor; Provisional; Region: PRK12520 381666019716 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666019717 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 381666019718 DNA binding residues [nucleotide binding] 381666019719 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 381666019720 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 381666019721 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 381666019722 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 381666019723 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 381666019724 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 381666019725 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 381666019726 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 381666019727 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666019728 aspartate racemase; Region: asp_race; TIGR00035 381666019729 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 381666019730 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 381666019731 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 381666019732 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666019733 substrate binding pocket [chemical binding]; other site 381666019734 membrane-bound complex binding site; other site 381666019735 hinge residues; other site 381666019736 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 381666019737 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 381666019738 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 381666019739 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 381666019740 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 381666019741 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 381666019742 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 381666019743 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 381666019744 Walker A motif; other site 381666019745 ATP binding site [chemical binding]; other site 381666019746 Walker B motif; other site 381666019747 arginine finger; other site 381666019748 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 381666019749 Walker A motif; other site 381666019750 ATP binding site [chemical binding]; other site 381666019751 Walker B motif; other site 381666019752 arginine finger; other site 381666019753 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 381666019754 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 381666019755 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 381666019756 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 381666019757 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 381666019758 Protein of unknown function (DUF796); Region: DUF796; pfam05638 381666019759 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 381666019760 Protein of unknown function (DUF877); Region: DUF877; pfam05943 381666019761 Protein of unknown function (DUF770); Region: DUF770; pfam05591 381666019762 transcriptional regulator NarP; Provisional; Region: PRK10403 381666019763 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 381666019764 active site 381666019765 phosphorylation site [posttranslational modification] 381666019766 intermolecular recognition site; other site 381666019767 dimerization interface [polypeptide binding]; other site 381666019768 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 381666019769 DNA binding residues [nucleotide binding] 381666019770 dimerization interface [polypeptide binding]; other site 381666019771 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666019772 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666019773 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 381666019774 putative dimerization interface [polypeptide binding]; other site 381666019775 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666019776 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666019777 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666019778 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 381666019779 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 381666019780 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 381666019781 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 381666019782 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 381666019783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666019784 hypothetical protein; Provisional; Region: PRK07475 381666019785 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 381666019786 zinc binding site [ion binding]; other site 381666019787 putative ligand binding site [chemical binding]; other site 381666019788 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666019789 Methylomonas sp. 4,4'-diapolycopene-dialdehyde dehydrogenase-like; Region: ALDH_DDALDH; cd07099 381666019790 NAD(P) binding site [chemical binding]; other site 381666019791 catalytic residues [active] 381666019792 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 381666019793 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666019794 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 381666019795 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 381666019796 Flavoprotein; Region: Flavoprotein; pfam02441 381666019797 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 381666019798 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 381666019799 TM-ABC transporter signature motif; other site 381666019800 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 381666019801 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 381666019802 Walker A/P-loop; other site 381666019803 ATP binding site [chemical binding]; other site 381666019804 Q-loop/lid; other site 381666019805 ABC transporter signature motif; other site 381666019806 Walker B; other site 381666019807 D-loop; other site 381666019808 H-loop/switch region; other site 381666019809 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 381666019810 zinc binding site [ion binding]; other site 381666019811 putative ligand binding site [chemical binding]; other site 381666019812 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666019813 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666019814 trimer interface [polypeptide binding]; other site 381666019815 eyelet of channel; other site 381666019816 thiamine pyrophosphate protein; Validated; Region: PRK08199 381666019817 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666019818 PYR/PP interface [polypeptide binding]; other site 381666019819 dimer interface [polypeptide binding]; other site 381666019820 TPP binding site [chemical binding]; other site 381666019821 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 381666019822 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 381666019823 TPP-binding site [chemical binding]; other site 381666019824 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 381666019825 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 381666019826 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 381666019827 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 381666019828 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 381666019829 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; pfam04115 381666019830 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666019831 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666019832 DNA-binding site [nucleotide binding]; DNA binding site 381666019833 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 381666019834 hypothetical protein; Provisional; Region: PRK11171 381666019835 Cupin domain; Region: Cupin_2; pfam07883 381666019836 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666019837 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666019838 trimer interface [polypeptide binding]; other site 381666019839 eyelet of channel; other site 381666019840 formamidase; Provisional; Region: amiF; PRK13287 381666019841 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 381666019842 multimer interface [polypeptide binding]; other site 381666019843 active site 381666019844 catalytic triad [active] 381666019845 dimer interface [polypeptide binding]; other site 381666019846 allantoicase; Provisional; Region: PRK13257 381666019847 Allantoicase repeat; Region: Allantoicase; pfam03561 381666019848 Allantoicase repeat; Region: Allantoicase; pfam03561 381666019849 Protein of unknown function (DUF3830); Region: DUF3830; pfam12903 381666019850 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 381666019851 H+ Antiporter protein; Region: 2A0121; TIGR00900 381666019852 putative substrate translocation pore; other site 381666019853 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 381666019854 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666019855 Walker A/P-loop; other site 381666019856 ATP binding site [chemical binding]; other site 381666019857 Q-loop/lid; other site 381666019858 ABC transporter signature motif; other site 381666019859 Walker B; other site 381666019860 D-loop; other site 381666019861 H-loop/switch region; other site 381666019862 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666019863 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 381666019864 Walker A/P-loop; other site 381666019865 ATP binding site [chemical binding]; other site 381666019866 Q-loop/lid; other site 381666019867 ABC transporter signature motif; other site 381666019868 Walker B; other site 381666019869 D-loop; other site 381666019870 H-loop/switch region; other site 381666019871 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666019872 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 381666019873 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 381666019874 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 381666019875 dimer interface [polypeptide binding]; other site 381666019876 conserved gate region; other site 381666019877 putative PBP binding loops; other site 381666019878 ABC-ATPase subunit interface; other site 381666019879 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 381666019880 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 381666019881 dimer interface [polypeptide binding]; other site 381666019882 conserved gate region; other site 381666019883 putative PBP binding loops; other site 381666019884 ABC-ATPase subunit interface; other site 381666019885 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_10; cd08515 381666019886 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 381666019887 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 381666019888 dimerization interface [polypeptide binding]; other site 381666019889 putative DNA binding site [nucleotide binding]; other site 381666019890 putative Zn2+ binding site [ion binding]; other site 381666019891 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 381666019892 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666019893 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666019894 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666019895 putative effector binding pocket; other site 381666019896 dimerization interface [polypeptide binding]; other site 381666019897 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 381666019898 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 381666019899 NAD binding site [chemical binding]; other site 381666019900 catalytic Zn binding site [ion binding]; other site 381666019901 substrate binding site [chemical binding]; other site 381666019902 structural Zn binding site [ion binding]; other site 381666019903 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 381666019904 PLD-like domain; Region: PLDc_2; pfam13091 381666019905 putative active site [active] 381666019906 catalytic site [active] 381666019907 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 381666019908 PLD-like domain; Region: PLDc_2; pfam13091 381666019909 putative active site [active] 381666019910 catalytic site [active] 381666019911 lysine transporter; Provisional; Region: PRK10836 381666019912 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 381666019913 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 381666019914 active site 381666019915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 381666019916 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 381666019917 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 381666019918 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 381666019919 N-terminal plug; other site 381666019920 ligand-binding site [chemical binding]; other site 381666019921 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666019922 enoyl-CoA hydratase; Provisional; Region: PRK06127 381666019923 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 381666019924 substrate binding site [chemical binding]; other site 381666019925 oxyanion hole (OAH) forming residues; other site 381666019926 trimer interface [polypeptide binding]; other site 381666019927 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666019928 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666019929 DNA-binding site [nucleotide binding]; DNA binding site 381666019930 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 381666019931 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666019932 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666019933 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 381666019934 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 381666019935 Na binding site [ion binding]; other site 381666019936 putative substrate binding site [chemical binding]; other site 381666019937 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 381666019938 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 381666019939 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 381666019940 active site 381666019941 catalytic site [active] 381666019942 tetramer interface [polypeptide binding]; other site 381666019943 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666019944 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666019945 DNA-binding site [nucleotide binding]; DNA binding site 381666019946 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 381666019947 Cupin domain; Region: Cupin_2; cl17218 381666019948 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 381666019949 putative PBP binding loops; other site 381666019950 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 381666019951 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666019952 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666019953 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 381666019954 substrate binding pocket [chemical binding]; other site 381666019955 membrane-bound complex binding site; other site 381666019956 hinge residues; other site 381666019957 Domain of unknown function (DUF427); Region: DUF427; pfam04248 381666019958 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666019959 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666019960 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666019961 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 381666019962 active site 381666019963 catalytic residues [active] 381666019964 metal binding site [ion binding]; metal-binding site 381666019965 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666019966 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666019967 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 381666019968 putative dimerization interface [polypeptide binding]; other site 381666019969 short chain dehydrogenase; Provisional; Region: PRK12828 381666019970 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666019971 NAD(P) binding site [chemical binding]; other site 381666019972 active site 381666019973 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666019974 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666019975 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 381666019976 substrate binding pocket [chemical binding]; other site 381666019977 dimerization interface [polypeptide binding]; other site 381666019978 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 381666019979 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 381666019980 potential catalytic triad [active] 381666019981 conserved cys residue [active] 381666019982 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 381666019983 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 381666019984 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 381666019985 active site 381666019986 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 381666019987 Flavodoxin; Region: Flavodoxin_1; pfam00258 381666019988 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 381666019989 FAD binding domain; Region: FAD_binding_1; pfam00667 381666019990 conserved FAD binding motif [chemical binding]; other site 381666019991 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like1; cd06200 381666019992 FAD binding pocket [chemical binding]; other site 381666019993 FAD binding motif [chemical binding]; other site 381666019994 catalytic residues [active] 381666019995 NAD binding pocket [chemical binding]; other site 381666019996 phosphate binding motif [ion binding]; other site 381666019997 beta-alpha-beta structure motif; other site 381666019998 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 381666019999 ApbE family; Region: ApbE; pfam02424 381666020000 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 381666020001 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 381666020002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 381666020003 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 381666020004 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 381666020005 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666020006 dimer interface [polypeptide binding]; other site 381666020007 putative CheW interface [polypeptide binding]; other site 381666020008 Predicted membrane protein [Function unknown]; Region: COG2261 381666020009 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 381666020010 Transglycosylase; Region: Transgly; cl17702 381666020011 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 381666020012 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 381666020013 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 381666020014 active site 381666020015 catalytic tetrad [active] 381666020016 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 381666020017 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 381666020018 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666020019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666020020 NAD(P) binding site [chemical binding]; other site 381666020021 active site 381666020022 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 381666020023 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666020024 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666020025 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 381666020026 putative effector binding pocket; other site 381666020027 dimerization interface [polypeptide binding]; other site 381666020028 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 381666020029 active site 381666020030 catalytic triad [active] 381666020031 oxyanion hole [active] 381666020032 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666020033 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 381666020034 C-terminal domain interface [polypeptide binding]; other site 381666020035 GSH binding site (G-site) [chemical binding]; other site 381666020036 dimer interface [polypeptide binding]; other site 381666020037 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 381666020038 N-terminal domain interface [polypeptide binding]; other site 381666020039 dimer interface [polypeptide binding]; other site 381666020040 substrate binding pocket (H-site) [chemical binding]; other site 381666020041 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 381666020042 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666020043 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666020044 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 381666020045 dimerization interface [polypeptide binding]; other site 381666020046 substrate binding pocket [chemical binding]; other site 381666020047 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 381666020048 homotrimer interaction site [polypeptide binding]; other site 381666020049 putative active site [active] 381666020050 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 381666020051 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 381666020052 active site 381666020053 FMN binding site [chemical binding]; other site 381666020054 substrate binding site [chemical binding]; other site 381666020055 putative catalytic residue [active] 381666020056 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666020057 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666020058 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666020059 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 381666020060 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 381666020061 NADP binding site [chemical binding]; other site 381666020062 dimer interface [polypeptide binding]; other site 381666020063 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 381666020064 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666020065 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 381666020066 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666020067 acyl-activating enzyme (AAE) consensus motif; other site 381666020068 AMP binding site [chemical binding]; other site 381666020069 active site 381666020070 CoA binding site [chemical binding]; other site 381666020071 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666020072 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 381666020073 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 381666020074 catalytic residues [active] 381666020075 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 381666020076 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 381666020077 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666020078 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666020079 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 381666020080 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 381666020081 trimer interface [polypeptide binding]; other site 381666020082 eyelet of channel; other site 381666020083 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 381666020084 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 381666020085 benzoate transport; Region: 2A0115; TIGR00895 381666020086 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 381666020087 putative substrate translocation pore; other site 381666020088 argininosuccinate synthase; Validated; Region: PRK05370 381666020089 argininosuccinate synthase; Provisional; Region: PRK13820 381666020090 putative CoA-transferase; Provisional; Region: PRK11430 381666020091 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666020092 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 381666020093 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666020094 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 381666020095 substrate binding site [chemical binding]; other site 381666020096 oxyanion hole (OAH) forming residues; other site 381666020097 trimer interface [polypeptide binding]; other site 381666020098 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666020099 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666020100 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 381666020101 putative dimerization interface [polypeptide binding]; other site 381666020102 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 381666020103 dimer interface [polypeptide binding]; other site 381666020104 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666020105 hypothetical protein; Provisional; Region: PRK04325 381666020106 EamA-like transporter family; Region: EamA; pfam00892 381666020107 NAD-dependent deacetylase; Provisional; Region: PRK05333 381666020108 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 381666020109 NAD+ binding site [chemical binding]; other site 381666020110 substrate binding site [chemical binding]; other site 381666020111 Zn binding site [ion binding]; other site 381666020112 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 381666020113 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 381666020114 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 381666020115 active site 381666020116 nucleophile elbow; other site 381666020117 Surface antigen; Region: Bac_surface_Ag; pfam01103 381666020118 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 381666020119 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 381666020120 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666020121 Flagellar regulator YcgR; Region: YcgR; pfam07317 381666020122 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 381666020123 PilZ domain; Region: PilZ; pfam07238 381666020124 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666020125 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 381666020126 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 381666020127 dimerization interface [polypeptide binding]; other site 381666020128 LysE type translocator; Region: LysE; cl00565 381666020129 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 381666020130 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 381666020131 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 381666020132 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 381666020133 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 381666020134 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 381666020135 DNA binding site [nucleotide binding] 381666020136 active site 381666020137 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 381666020138 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 381666020139 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666020140 AlkA N-terminal domain; Region: AlkA_N; pfam06029 381666020141 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 381666020142 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 381666020143 minor groove reading motif; other site 381666020144 helix-hairpin-helix signature motif; other site 381666020145 substrate binding pocket [chemical binding]; other site 381666020146 active site 381666020147 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 381666020148 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 381666020149 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 381666020150 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 381666020151 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 381666020152 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666020153 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666020154 active site 381666020155 OPT oligopeptide transporter protein; Region: OPT; cl14607 381666020156 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 381666020157 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 381666020158 MarR family; Region: MarR_2; pfam12802 381666020159 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666020160 hypothetical protein; Provisional; Region: PRK11770 381666020161 Domain of unknown function (DUF307); Region: DUF307; pfam03733 381666020162 Domain of unknown function (DUF307); Region: DUF307; pfam03733 381666020163 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 381666020164 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 381666020165 putative ligand binding site [chemical binding]; other site 381666020166 NAD binding site [chemical binding]; other site 381666020167 catalytic site [active] 381666020168 HAMP domain; Region: HAMP; pfam00672 381666020169 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 381666020170 dimer interface [polypeptide binding]; other site 381666020171 phosphorylation site [posttranslational modification] 381666020172 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 381666020173 ATP binding site [chemical binding]; other site 381666020174 Mg2+ binding site [ion binding]; other site 381666020175 G-X-G motif; other site 381666020176 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666020177 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 381666020178 active site 381666020179 phosphorylation site [posttranslational modification] 381666020180 intermolecular recognition site; other site 381666020181 dimerization interface [polypeptide binding]; other site 381666020182 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 381666020183 DNA binding site [nucleotide binding] 381666020184 Glucokinase; Region: Glucokinase; cl17310 381666020185 glucokinase, proteobacterial type; Region: glk; TIGR00749 381666020186 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 381666020187 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 381666020188 putative active site [active] 381666020189 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 381666020190 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 381666020191 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 381666020192 phosphogluconate dehydratase; Validated; Region: PRK09054 381666020193 6-phosphogluconate dehydratase; Region: edd; TIGR01196 381666020194 mechanosensitive channel MscS; Provisional; Region: PRK10334 381666020195 Conserved TM helix; Region: TM_helix; pfam05552 381666020196 Mechanosensitive ion channel; Region: MS_channel; pfam00924 381666020197 H+ Antiporter protein; Region: 2A0121; TIGR00900 381666020198 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 381666020199 putative substrate translocation pore; other site 381666020200 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 381666020201 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 381666020202 N-terminal plug; other site 381666020203 ligand-binding site [chemical binding]; other site 381666020204 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 381666020205 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 381666020206 G1 box; other site 381666020207 putative GEF interaction site [polypeptide binding]; other site 381666020208 GTP/Mg2+ binding site [chemical binding]; other site 381666020209 Switch I region; other site 381666020210 G2 box; other site 381666020211 G3 box; other site 381666020212 Switch II region; other site 381666020213 G4 box; other site 381666020214 G5 box; other site 381666020215 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 381666020216 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 381666020217 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 381666020218 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 381666020219 Walker A motif; other site 381666020220 ATP binding site [chemical binding]; other site 381666020221 Walker B motif; other site 381666020222 arginine finger; other site 381666020223 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 381666020224 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 381666020225 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 381666020226 DNA-binding site [nucleotide binding]; DNA binding site 381666020227 RNA-binding motif; other site