-- dump date 20120504_160037 -- 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; cl15792 381666000004 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 381666000005 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 381666000006 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 381666000007 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 381666000008 putative substrate-binding site; other site 381666000009 nickel binding site [ion binding]; other site 381666000010 HupF/HypC family; Region: HupF_HypC; cl00394 381666000011 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 381666000012 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 381666000013 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 381666000014 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 381666000015 Rubredoxin; Region: Rubredoxin; pfam00301 381666000016 iron binding site [ion binding]; other site 381666000017 Protein of unknown function (DUF3457); Region: DUF3457; cl08122 381666000018 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 381666000019 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 381666000020 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 381666000021 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 381666000022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000023 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 381666000024 HupF/HypC family; Region: HupF_HypC; cl00394 381666000025 Hydrogenase formation hypA family; Region: HypD; cl12072 381666000026 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 381666000027 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 381666000028 dimerization interface [polypeptide binding]; other site 381666000029 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 381666000030 ATP binding site [chemical binding]; other site 381666000031 HypX protein, N-terminal hydrolase domain; Region: FMT_core_HypX_N; cd08650 381666000032 putative active site [active] 381666000033 putative substrate binding site [chemical binding]; other site 381666000034 putative cosubstrate binding site; other site 381666000035 catalytic site [active] 381666000036 C-terminal subdomain of the Formyltransferase-like domain found in HypX-like proteins; Region: FMT_C_HypX; cd08701 381666000037 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 381666000038 substrate binding site [chemical binding]; other site 381666000039 oxyanion hole (OAH) forming residues; other site 381666000040 trimer interface [polypeptide binding]; other site 381666000041 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 381666000042 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666000043 active site 381666000044 phosphorylation site [posttranslational modification] 381666000045 intermolecular recognition site; other site 381666000046 dimerization interface [polypeptide binding]; other site 381666000047 Protein of unknown function (DUF2861); Region: DUF2861; pfam11060 381666000048 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 381666000049 Walker A motif; other site 381666000050 ATP binding site [chemical binding]; other site 381666000051 Walker B motif; other site 381666000052 arginine finger; other site 381666000053 Helix-turn-helix domains; Region: HTH; cl00088 381666000054 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 381666000055 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 381666000056 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 381666000057 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 381666000058 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 381666000059 putative active site [active] 381666000060 heme pocket [chemical binding]; other site 381666000061 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 381666000062 dimer interface [polypeptide binding]; other site 381666000063 phosphorylation site [posttranslational modification] 381666000064 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 381666000065 ATP binding site [chemical binding]; other site 381666000066 Mg2+ binding site [ion binding]; other site 381666000067 G-X-G motif; other site 381666000068 High-affinity nickel-transport protein; Region: NicO; cl00964 381666000069 similar to IS881 transposase 381666000070 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 381666000071 active site 381666000072 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 381666000073 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; cl01155 381666000074 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 381666000075 Integrase core domain; Region: rve_3; cl15866 381666000076 HTH-like domain; Region: HTH_21; pfam13276 381666000077 Integrase core domain; Region: rve; cl01316 381666000078 Helix-turn-helix domains; Region: HTH; cl00088 381666000079 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 381666000080 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 381666000081 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000082 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 381666000083 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 381666000084 Int/Topo IB signature motif; other site 381666000085 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000086 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 381666000087 Int/Topo IB signature motif; other site 381666000088 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000089 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 381666000090 Int/Topo IB signature motif; other site 381666000091 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 381666000092 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000093 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 381666000094 Int/Topo IB signature motif; other site 381666000095 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 381666000096 Int/Topo IB signature motif; other site 381666000097 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000098 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 381666000099 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 381666000100 Int/Topo IB signature motif; other site 381666000101 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 381666000102 Transposase; Region: DDE_Tnp_ISL3; pfam01610 381666000103 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 381666000104 active site 381666000105 Int/Topo IB signature motif; other site 381666000106 DNA binding site [nucleotide binding] 381666000107 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 381666000108 Int/Topo IB signature motif; other site 381666000109 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000110 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 381666000111 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 381666000112 Int/Topo IB signature motif; other site 381666000113 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 381666000114 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 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 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 381666000118 nickel binding site [ion binding]; other site 381666000119 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 381666000120 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 381666000121 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 381666000122 Int/Topo IB signature motif; other site 381666000123 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 381666000124 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 381666000125 Int/Topo IB signature motif; other site 381666000126 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 381666000127 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 381666000128 Int/Topo IB signature motif; other site 381666000129 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 381666000130 active site 381666000131 DNA binding site [nucleotide binding] 381666000132 Int/Topo IB signature motif; other site 381666000133 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 381666000134 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 381666000135 Transposase domain (DUF772); Region: DUF772; pfam05598 381666000136 High-affinity nickel-transport protein; Region: NicO; cl00964 381666000137 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 381666000138 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 381666000139 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 381666000140 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 381666000141 nickel binding site [ion binding]; other site 381666000142 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 381666000143 Acylphosphatase; Region: Acylphosphatase; cl00551 381666000144 HypF finger; Region: zf-HYPF; pfam07503 381666000145 HypF finger; Region: zf-HYPF; pfam07503 381666000146 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 381666000147 HupF/HypC family; Region: HupF_HypC; cl00394 381666000148 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 381666000149 dimer interface [polypeptide binding]; other site 381666000150 active site 381666000151 Hydrogenase formation hypA family; Region: HypD; cl12072 381666000152 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 381666000153 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 381666000154 dimerization interface [polypeptide binding]; other site 381666000155 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 381666000156 ATP binding site [chemical binding]; other site 381666000157 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 381666000158 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 381666000159 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000160 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 381666000161 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 381666000162 sensor protein BasS/PmrB; Provisional; Region: PRK10755 381666000163 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 381666000164 ATP binding site [chemical binding]; other site 381666000165 Mg2+ binding site [ion binding]; other site 381666000166 G-X-G motif; other site 381666000167 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 381666000168 DNA binding site [nucleotide binding] 381666000169 active site 381666000170 Int/Topo IB signature motif; other site 381666000171 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 381666000172 Helix-turn-helix domains; Region: HTH; cl00088 381666000173 Putative transposase; Region: Y2_Tnp; pfam04986 381666000174 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 381666000175 Putative transposase; Region: Y2_Tnp; pfam04986 381666000176 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 381666000177 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 381666000178 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 381666000179 putative dimer interface [polypeptide binding]; other site 381666000180 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 381666000181 SLBB domain; Region: SLBB; pfam10531 381666000182 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 381666000183 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 381666000184 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 381666000185 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 381666000186 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 381666000187 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 381666000188 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 381666000189 nickel binding site [ion binding]; other site 381666000190 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 381666000191 ligand binding site [chemical binding]; other site 381666000192 flexible hinge region; other site 381666000193 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 381666000194 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 381666000195 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000196 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 381666000197 Acylphosphatase; Region: Acylphosphatase; cl00551 381666000198 HypF finger; Region: zf-HYPF; pfam07503 381666000199 HypF finger; Region: zf-HYPF; pfam07503 381666000200 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 381666000201 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000202 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 381666000203 Int/Topo IB signature motif; other site 381666000204 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 381666000205 Transposase; Region: DDE_Tnp_ISL3; pfam01610 381666000206 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000207 AAA domain; Region: AAA_22; pfam13401 381666000208 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 381666000209 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 381666000210 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 381666000211 Catalytic domain of Protein Kinases; Region: PKc; cd00180 381666000212 active site 381666000213 ATP binding site [chemical binding]; other site 381666000214 substrate binding site [chemical binding]; other site 381666000215 activation loop (A-loop); other site 381666000216 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 381666000217 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 381666000218 Walker A motif; other site 381666000219 ATP binding site [chemical binding]; other site 381666000220 Walker B motif; other site 381666000221 arginine finger; other site 381666000222 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 381666000223 active site 381666000224 catalytic triad [active] 381666000225 alternate site of translation initiation 381666000226 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666000227 alternate site of translation initiation 381666000228 Integrase core domain; Region: rve_3; cl15866 381666000229 Integrase core domain; Region: rve; cl01316 381666000230 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 381666000231 alternate site of translation initiation 381666000232 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 381666000233 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 381666000234 alternate site of translation initiation 381666000235 K+ potassium transporter; Region: K_trans; cl15781 381666000236 alternate site of translation initiation 381666000237 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; cl16911 381666000238 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 381666000239 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 381666000240 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; cl09155 381666000241 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 381666000242 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 381666000243 active site 381666000244 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 381666000245 dimer interface [polypeptide binding]; other site 381666000246 catalytic residues [active] 381666000247 substrate binding site [chemical binding]; other site 381666000248 IucA / IucC family; Region: IucA_IucC; pfam04183 381666000249 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 381666000250 drug efflux system protein MdtG; Provisional; Region: PRK09874 381666000251 IucA / IucC family; Region: IucA_IucC; pfam04183 381666000252 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 381666000253 argininosuccinate lyase; Provisional; Region: PRK02186 381666000254 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666000255 alternate site of translation initiation 381666000256 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 381666000257 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 381666000258 N-terminal plug; other site 381666000259 ligand-binding site [chemical binding]; other site 381666000260 alternate site of translation initiation 381666000261 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 381666000262 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 381666000263 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 381666000264 Int/Topo IB signature motif; other site 381666000265 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 381666000266 Int/Topo IB signature motif; other site 381666000267 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 381666000268 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000269 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 381666000270 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 381666000271 Int/Topo IB signature motif; other site 381666000272 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666000273 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 381666000274 Int/Topo IB signature motif; other site 381666000275 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 381666000276 active site 381666000277 Int/Topo IB signature motif; other site 381666000278 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 381666000279 Int/Topo IB signature motif; other site 381666000280 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 381666000281 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 381666000282 Int/Topo IB signature motif; other site 381666000283 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 381666000284 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 381666000285 Integrase core domain; Region: rve; cl01316 381666000286 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 381666000287 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 381666000288 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 381666000289 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 381666000290 Abortive infection C-terminus; Region: Abi_C; pfam14355 381666000291 Abortive infection C-terminus; Region: Abi_C; pfam14355 381666000292 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000293 AAA domain; Region: AAA_21; pfam13304 381666000294 Walker A/P-loop; other site 381666000295 ATP binding site [chemical binding]; other site 381666000296 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 381666000297 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 381666000298 Family description; Region: UvrD_C_2; cl15862 381666000299 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 381666000300 starch-binding site 1 [chemical binding]; other site 381666000301 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 381666000302 Helix-turn-helix domains; Region: HTH; cl00088 381666000303 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 381666000304 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 381666000305 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 381666000306 Integrase core domain; Region: rve; cl01316 381666000307 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 381666000308 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 381666000309 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666000310 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000311 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 381666000312 Family description; Region: UvrD_C_2; cl15862 381666000313 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 381666000314 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000315 Walker A/P-loop; other site 381666000316 ATP binding site [chemical binding]; other site 381666000317 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 381666000318 putative active site [active] 381666000319 putative metal-binding site [ion binding]; other site 381666000320 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 protein; Region: CSP_CDS; cd04458 381666000321 DNA-binding site [nucleotide binding]; DNA binding site 381666000322 RNA-binding motif; other site 381666000323 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 381666000324 Restriction endonuclease; Region: Mrr_cat; cl00516 381666000325 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 381666000326 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 381666000327 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 381666000328 SWIM zinc finger; Region: SWIM; cl15408 381666000329 SNF2 Helicase protein; Region: DUF3670; pfam12419 381666000330 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 381666000331 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 381666000332 ATP binding site [chemical binding]; other site 381666000333 putative Mg++ binding site [ion binding]; other site 381666000334 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 381666000335 nucleotide binding region [chemical binding]; other site 381666000336 ATP-binding site [chemical binding]; other site 381666000337 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 381666000338 H-NS histone family; Region: Histone_HNS; pfam00816 381666000339 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 381666000340 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 381666000341 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 381666000342 active site 381666000343 metal binding site [ion binding]; metal-binding site 381666000344 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 381666000345 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 381666000346 non-specific DNA binding site [nucleotide binding]; other site 381666000347 salt bridge; other site 381666000348 sequence-specific DNA binding site [nucleotide binding]; other site 381666000349 RelB antitoxin; Region: RelB; cl01171 381666000350 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 381666000351 dimer interface [polypeptide binding]; other site 381666000352 phosphorylation site [posttranslational modification] 381666000353 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 381666000354 ATP binding site [chemical binding]; other site 381666000355 Mg2+ binding site [ion binding]; other site 381666000356 G-X-G motif; other site 381666000357 Uncharacterized conserved protein [Function unknown]; Region: COG4715 381666000358 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 381666000359 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 381666000360 ATP binding site [chemical binding]; other site 381666000361 putative Mg++ binding site [ion binding]; other site 381666000362 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 381666000363 nucleotide binding region [chemical binding]; other site 381666000364 ATP-binding site [chemical binding]; other site 381666000365 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 381666000366 oligomeric interface; other site 381666000367 putative active site [active] 381666000368 homodimer interface [polypeptide binding]; other site 381666000369 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 381666000370 active site 381666000371 Int/Topo IB signature motif; other site 381666000372 DNA binding site [nucleotide binding] 381666000373 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 381666000374 active site 381666000375 catalytic residues [active] 381666000376 DNA binding site [nucleotide binding] 381666000377 Int/Topo IB signature motif; other site 381666000378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 381666000379 Uncharacterized conserved protein [Function unknown]; Region: COG5642 381666000380 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 381666000381 RES domain; Region: RES; cl02411 381666000382 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 381666000383 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 381666000384 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 381666000385 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 381666000386 heme-binding site [chemical binding]; other site 381666000387 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 381666000388 FAD binding pocket [chemical binding]; other site 381666000389 FAD binding motif [chemical binding]; other site 381666000390 phosphate binding motif [ion binding]; other site 381666000391 beta-alpha-beta structure motif; other site 381666000392 NAD binding pocket [chemical binding]; other site 381666000393 Heme binding pocket [chemical binding]; other site 381666000394 Putative exonuclease, RdgC; Region: RdgC; cl01122 381666000395 Phasin protein; Region: Phasin_2; cl11491 381666000396 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 381666000397 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 381666000398 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 381666000399 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 381666000400 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 381666000401 NapD protein; Region: NapD; cl01163 381666000402 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 381666000403 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 381666000404 [4Fe-4S] binding site [ion binding]; other site 381666000405 molybdopterin cofactor binding site; other site 381666000406 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 381666000407 molybdopterin cofactor binding site; other site 381666000408 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 381666000409 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 381666000410 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 381666000411 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000412 Walker A/P-loop; other site 381666000413 ATP binding site [chemical binding]; other site 381666000414 Q-loop/lid; other site 381666000415 ABC transporter signature motif; other site 381666000416 Walker B; other site 381666000417 D-loop; other site 381666000418 H-loop/switch region; other site 381666000419 alternate site of translation initiation 381666000420 CcmB protein; Region: CcmB; cl01016 381666000421 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 381666000422 CcmE; Region: CcmE; cl00994 381666000423 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 381666000424 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 381666000425 catalytic residues [active] 381666000426 central insert; other site 381666000427 Cytochrome C biogenesis protein; Region: CcmH; cl01179 381666000428 alternate site of translation initiation 381666000429 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 381666000430 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 381666000431 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666000432 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 381666000433 FAD binding site [chemical binding]; other site 381666000434 substrate binding site [chemical binding]; other site 381666000435 catalytic base [active] 381666000436 Beta-Casp domain; Region: Beta-Casp; cl12567 381666000437 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666000438 MgtC family; Region: MgtC; pfam02308 381666000439 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 381666000440 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 381666000441 Ligand Binding Site [chemical binding]; other site 381666000442 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 381666000443 putative NAD(P) binding site [chemical binding]; other site 381666000444 catalytic Zn binding site [ion binding]; other site 381666000445 putative substrate binding site [chemical binding]; other site 381666000446 structural Zn binding site [ion binding]; other site 381666000447 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 381666000448 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666000449 active site 381666000450 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 381666000451 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 381666000452 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; cl00436 381666000453 Predicted transcriptional regulator [Transcription]; Region: COG1959 381666000454 Helix-turn-helix domains; Region: HTH; cl00088 381666000455 Domain of unknown function DUF59; Region: DUF59; cl00941 381666000456 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 381666000457 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 381666000458 FeS/SAM binding site; other site 381666000459 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 381666000460 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 381666000461 ATP cone domain; Region: ATP-cone; pfam03477 381666000462 Class III ribonucleotide reductase; Region: RNR_III; cd01675 381666000463 effector binding site; other site 381666000464 active site 381666000465 Zn binding site [ion binding]; other site 381666000466 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 381666000467 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 381666000468 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 381666000469 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 381666000470 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 381666000471 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 381666000472 GAF domain; Region: GAF; cl15785 381666000473 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 381666000474 Walker A motif; other site 381666000475 ATP binding site [chemical binding]; other site 381666000476 Walker B motif; other site 381666000477 arginine finger; other site 381666000478 Helix-turn-helix domains; Region: HTH; cl00088 381666000479 NosL; Region: NosL; cl01769 381666000480 ABC-2 type transporter; Region: ABC2_membrane; cl11417 381666000481 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 381666000482 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000483 Walker A/P-loop; other site 381666000484 ATP binding site [chemical binding]; other site 381666000485 Q-loop/lid; other site 381666000486 ABC transporter signature motif; other site 381666000487 Walker B; other site 381666000488 D-loop; other site 381666000489 H-loop/switch region; other site 381666000490 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 381666000491 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 381666000492 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 381666000493 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 381666000494 FMN-binding domain; Region: FMN_bind; cl01081 381666000495 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 381666000496 4Fe-4S binding domain; Region: Fer4_5; pfam12801 381666000497 4Fe-4S binding domain; Region: Fer4_5; pfam12801 381666000498 nitrous-oxide reductase; Validated; Region: PRK02888 381666000499 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 381666000500 Cytochrome c; Region: Cytochrom_C; cl11414 381666000501 ApbE family; Region: ApbE; cl00643 381666000502 SCP-2 sterol transfer family; Region: SCP2; cl01225 381666000503 Peptidase family U32; Region: Peptidase_U32; cl03113 381666000504 Peptidase family U32; Region: Peptidase_U32; cl03113 381666000505 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 381666000506 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 381666000507 FMN binding site [chemical binding]; other site 381666000508 substrate binding site [chemical binding]; other site 381666000509 putative catalytic residue [active] 381666000510 DGC domain; Region: DGC; cl01742 381666000511 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 381666000512 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 381666000513 NAD binding site [chemical binding]; other site 381666000514 homotetramer interface [polypeptide binding]; other site 381666000515 homodimer interface [polypeptide binding]; other site 381666000516 substrate binding site [chemical binding]; other site 381666000517 active site 381666000518 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666000519 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 381666000520 ligand binding site [chemical binding]; other site 381666000521 flexible hinge region; other site 381666000522 Helix-turn-helix domains; Region: HTH; cl00088 381666000523 putative switch regulator; other site 381666000524 non-specific DNA interactions [nucleotide binding]; other site 381666000525 DNA binding site [nucleotide binding] 381666000526 sequence specific DNA binding site [nucleotide binding]; other site 381666000527 putative cAMP binding site [chemical binding]; other site 381666000528 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 381666000529 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 381666000530 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 381666000531 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 381666000532 dimerization interface [polypeptide binding]; other site 381666000533 GAF domain; Region: GAF; cl15785 381666000534 Histidine kinase; Region: HisKA_3; pfam07730 381666000535 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 381666000536 ATP binding site [chemical binding]; other site 381666000537 Mg2+ binding site [ion binding]; other site 381666000538 G-X-G motif; other site 381666000539 transcriptional regulator NarL; Provisional; Region: PRK10651 381666000540 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666000541 active site 381666000542 phosphorylation site [posttranslational modification] 381666000543 intermolecular recognition site; other site 381666000544 dimerization interface [polypeptide binding]; other site 381666000545 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 381666000546 DNA binding residues [nucleotide binding] 381666000547 dimerization interface [polypeptide binding]; other site 381666000548 NnrS protein; Region: NnrS; cl01258 381666000549 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 381666000550 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666000551 putative substrate translocation pore; other site 381666000552 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 381666000553 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 381666000554 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 381666000555 [4Fe-4S] binding site [ion binding]; other site 381666000556 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 381666000557 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 381666000558 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 381666000559 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 381666000560 molybdopterin cofactor binding site; other site 381666000561 nitrate reductase, beta subunit; Region: narH; TIGR01660 381666000562 4Fe-4S binding domain; Region: Fer4; cl02805 381666000563 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 381666000564 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 381666000565 PPIC-type PPIASE domain; Region: Rotamase; cl08278 381666000566 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 381666000567 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 381666000568 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 381666000569 ligand binding site [chemical binding]; other site 381666000570 flexible hinge region; other site 381666000571 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 381666000572 putative switch regulator; other site 381666000573 non-specific DNA interactions [nucleotide binding]; other site 381666000574 DNA binding site [nucleotide binding] 381666000575 sequence specific DNA binding site [nucleotide binding]; other site 381666000576 putative cAMP binding site [chemical binding]; other site 381666000577 alternate site of translation initiation 381666000578 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 381666000579 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 381666000580 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 381666000581 PAS domain; Region: PAS_9; pfam13426 381666000582 putative active site [active] 381666000583 heme pocket [chemical binding]; other site 381666000584 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 381666000585 cyclase homology domain; Region: CHD; cd07302 381666000586 nucleotidyl binding site; other site 381666000587 metal binding site [ion binding]; metal-binding site 381666000588 dimer interface [polypeptide binding]; other site 381666000589 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 381666000590 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 381666000591 active site 381666000592 NTP binding site [chemical binding]; other site 381666000593 metal binding triad [ion binding]; metal-binding site 381666000594 antibiotic binding site [chemical binding]; other site 381666000595 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 381666000596 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 381666000597 active site 381666000598 Int/Topo IB signature motif; other site 381666000599 DNA binding site [nucleotide binding] 381666000600 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 381666000601 IHF dimer interface [polypeptide binding]; other site 381666000602 IHF - DNA interface [nucleotide binding]; other site 381666000603 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 381666000604 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000605 Walker A/P-loop; other site 381666000606 ATP binding site [chemical binding]; other site 381666000607 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 381666000608 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 381666000609 active site 381666000610 metal binding site [ion binding]; metal-binding site 381666000611 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 381666000612 Domain of unknown function (DUF932); Region: DUF932; cl12129 381666000613 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 381666000614 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 381666000615 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 381666000616 ATP binding site [chemical binding]; other site 381666000617 substrate interface [chemical binding]; other site 381666000618 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 381666000619 PRTRC system protein A; Region: PRTRC_A; TIGR03735 381666000620 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 381666000621 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 381666000622 PRTRC system protein F; Region: PRTRC_F; TIGR03742 381666000623 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 381666000624 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 381666000625 PRTRC system protein E; Region: PRTRC_E; TIGR03741 381666000626 ParB-like nuclease domain; Region: ParBc; cl02129 381666000627 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 381666000628 Helix-turn-helix domains; Region: HTH; cl00088 381666000629 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 381666000630 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 381666000631 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 381666000632 nucleotide binding region [chemical binding]; other site 381666000633 ATP-binding site [chemical binding]; other site 381666000634 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 381666000635 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 381666000636 Family description; Region: UvrD_C_2; cl15862 381666000637 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 381666000638 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 381666000639 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 381666000640 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; cl16911 381666000641 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 381666000642 active site 381666000643 substrate binding site [chemical binding]; other site 381666000644 Mg2+ binding site [ion binding]; other site 381666000645 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 381666000646 IHF dimer interface [polypeptide binding]; other site 381666000647 IHF - DNA interface [nucleotide binding]; other site 381666000648 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 381666000649 active site 381666000650 catalytic residues [active] 381666000651 Int/Topo IB signature motif; other site 381666000652 DNA binding site [nucleotide binding] 381666000653 PRTRC system protein D; Region: PRTRC_D; TIGR03739 381666000654 StbA protein; Region: StbA; pfam06406 381666000655 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 381666000656 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 381666000657 dimer interface [polypeptide binding]; other site 381666000658 ssDNA binding site [nucleotide binding]; other site 381666000659 tetramer (dimer of dimers) interface [polypeptide binding]; other site 381666000660 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 381666000661 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 381666000662 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 381666000663 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 381666000664 PilS N terminal; Region: PilS; pfam08805 381666000665 PilS N terminal; Region: PilS; pfam08805 381666000666 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 381666000667 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 381666000668 Type II/IV secretion system protein; Region: T2SE; pfam00437 381666000669 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000670 Walker A motif; other site 381666000671 ATP binding site [chemical binding]; other site 381666000672 Walker B motif; other site 381666000673 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 381666000674 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 381666000675 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 381666000676 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 381666000677 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 catalyze...; Region: LT_GEWL; cd00254 381666000678 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666000679 catalytic residue [active] 381666000680 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 381666000681 VirB7 interaction site; other site 381666000682 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 381666000683 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 381666000684 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 381666000685 VirB7 interaction site; other site 381666000686 VirB8 protein; Region: VirB8; cl01500 381666000687 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 381666000688 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 381666000689 Walker A motif; other site 381666000690 hexamer interface [polypeptide binding]; other site 381666000691 ATP binding site [chemical binding]; other site 381666000692 Walker B motif; other site 381666000693 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 381666000694 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 381666000695 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 381666000696 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 381666000697 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 381666000698 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 381666000699 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 381666000700 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 381666000701 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000702 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 381666000703 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 381666000704 Family description; Region: UvrD_C_2; cl15862 381666000705 Helix-turn-helix domains; Region: HTH; cl00088 381666000706 Initiator Replication protein; Region: Rep_3; cl03080 381666000707 AT-rich reion 381666000708 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 381666000709 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 381666000710 P-loop; other site 381666000711 Magnesium ion binding site [ion binding]; other site 381666000712 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 381666000713 Magnesium ion binding site [ion binding]; other site 381666000714 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 381666000715 ParB-like nuclease domain; Region: ParBc; cl02129 381666000716 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 381666000717 DNA binding site [nucleotide binding] 381666000718 Int/Topo IB signature motif; other site 381666000719 active site 381666000720 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 381666000721 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 381666000722 PemK-like protein; Region: PemK; cl00995 381666000723 NMT1-like family; Region: NMT1_2; cl15260 381666000724 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 381666000725 PAS domain; Region: PAS_9; pfam13426 381666000726 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 381666000727 cyclase homology domain; Region: CHD; cd07302 381666000728 nucleotidyl binding site; other site 381666000729 metal binding site [ion binding]; metal-binding site 381666000730 dimer interface [polypeptide binding]; other site 381666000731 Muconolactone delta-isomerase; Region: MIase; cl01992 381666000732 Methylmuconolactone methyl-isomerase; Region: MmlI; pfam09448 381666000733 benzoate transport; Region: 2A0115; TIGR00895 381666000734 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666000735 putative substrate translocation pore; other site 381666000736 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 381666000737 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 381666000738 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666000739 Helix-turn-helix domains; Region: HTH; cl00088 381666000740 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 381666000741 putative dimerization interface [polypeptide binding]; other site 381666000742 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666000743 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666000744 NMT1-like family; Region: NMT1_2; cl15260 381666000745 Muconolactone delta-isomerase; Region: MIase; cl01992 381666000746 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 381666000747 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 381666000748 octamer interface [polypeptide binding]; other site 381666000749 active site 381666000750 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 381666000751 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 381666000752 FMN binding site [chemical binding]; other site 381666000753 substrate binding site [chemical binding]; other site 381666000754 putative catalytic residue [active] 381666000755 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666000756 NMT1-like family; Region: NMT1_2; cl15260 381666000757 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 381666000758 homodimer interaction site [polypeptide binding]; other site 381666000759 putative active site [active] 381666000760 putative catalytic site [active] 381666000761 acyl-CoA synthetase; Validated; Region: PRK06164 381666000762 AMP-binding enzyme; Region: AMP-binding; cl15778 381666000763 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 381666000764 AMP-binding enzyme; Region: AMP-binding; cl15778 381666000765 AMP-binding enzyme; Region: AMP-binding; cl15778 381666000766 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666000767 NMT1-like family; Region: NMT1_2; cl15260 381666000768 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666000769 Helix-turn-helix domains; Region: HTH; cl00088 381666000770 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 381666000771 putative effector binding pocket; other site 381666000772 dimerization interface [polypeptide binding]; other site 381666000773 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666000774 NMT1-like family; Region: NMT1_2; cl15260 381666000775 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666000776 NMT1-like family; Region: NMT1_2; cl15260 381666000777 Muconolactone delta-isomerase; Region: MIase; cl01992 381666000778 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 381666000779 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 381666000780 octamer interface [polypeptide binding]; other site 381666000781 active site 381666000782 Helix-turn-helix domains; Region: HTH; cl00088 381666000783 Integrase core domain; Region: rve; cl01316 381666000784 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 381666000785 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000786 AAA domain; Region: AAA_22; pfam13401 381666000787 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 381666000788 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 381666000789 Transposase; Region: DEDD_Tnp_IS110; pfam01548 381666000790 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 381666000791 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 381666000792 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666000793 Helix-turn-helix domains; Region: HTH; cl00088 381666000794 Winged helix-turn helix; Region: HTH_29; pfam13551 381666000795 Helix-turn-helix domains; Region: HTH; cl00088 381666000796 Winged helix-turn helix; Region: HTH_33; pfam13592 381666000797 Integrase core domain; Region: rve; cl01316 381666000798 hypothetical protein; Provisional; Region: PRK08185 381666000799 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 381666000800 intersubunit interface [polypeptide binding]; other site 381666000801 active site 381666000802 zinc binding site [ion binding]; other site 381666000803 Na+ binding site [ion binding]; other site 381666000804 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 381666000805 Phosphoglycerate kinase; Region: PGK; pfam00162 381666000806 substrate binding site [chemical binding]; other site 381666000807 hinge regions; other site 381666000808 ADP binding site [chemical binding]; other site 381666000809 catalytic site [active] 381666000810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666000811 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 381666000812 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 381666000813 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 381666000814 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 381666000815 motif II; other site 381666000816 transketolase; Reviewed; Region: PRK12753 381666000817 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 381666000818 TPP-binding site [chemical binding]; other site 381666000819 dimer interface [polypeptide binding]; other site 381666000820 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 381666000821 PYR/PP interface [polypeptide binding]; other site 381666000822 dimer interface [polypeptide binding]; other site 381666000823 TPP binding site [chemical binding]; other site 381666000824 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 381666000825 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000826 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 381666000827 AMP binding site [chemical binding]; other site 381666000828 metal binding site [ion binding]; metal-binding site 381666000829 active site 381666000830 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 381666000831 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 381666000832 substrate binding site [chemical binding]; other site 381666000833 hexamer interface [polypeptide binding]; other site 381666000834 metal binding site [ion binding]; metal-binding site 381666000835 haloacid dehalogenase-like hydrolase family protein; Region: PLN02779 381666000836 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 381666000837 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 381666000838 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 381666000839 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 381666000840 Walker A motif; other site 381666000841 ATP binding site [chemical binding]; other site 381666000842 Walker B motif; other site 381666000843 arginine finger; other site 381666000844 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 381666000845 multimerization interface [polypeptide binding]; other site 381666000846 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 381666000847 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 381666000848 homodimer interface [polypeptide binding]; other site 381666000849 active site 381666000850 heterodimer interface [polypeptide binding]; other site 381666000851 catalytic residue [active] 381666000852 metal binding site [ion binding]; metal-binding site 381666000853 DnaA N-terminal domain; Region: DnaA_N; pfam11638 381666000854 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 381666000855 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 381666000856 Walker A motif; other site 381666000857 ATP binding site [chemical binding]; other site 381666000858 Walker B motif; other site 381666000859 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000860 arginine finger; other site 381666000861 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 381666000862 DnaA box-binding interface [nucleotide binding]; other site 381666000863 DNA polymerase III subunit beta; Validated; Region: PRK05643 381666000864 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 381666000865 putative DNA binding surface [nucleotide binding]; other site 381666000866 dimer interface [polypeptide binding]; other site 381666000867 beta-clamp/clamp loader binding surface; other site 381666000868 beta-clamp/translesion DNA polymerase binding surface; other site 381666000869 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 381666000870 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 381666000871 ATP binding site [chemical binding]; other site 381666000872 Mg2+ binding site [ion binding]; other site 381666000873 G-X-G motif; other site 381666000874 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 381666000875 anchoring element; other site 381666000876 dimer interface [polypeptide binding]; other site 381666000877 ATP binding site [chemical binding]; other site 381666000878 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 381666000879 active site 381666000880 putative metal-binding site [ion binding]; other site 381666000881 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 381666000882 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 381666000883 HsdM N-terminal domain; Region: HsdM_N; pfam12161 381666000884 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; cl16911 381666000885 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 381666000886 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 381666000887 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 381666000888 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 381666000889 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000890 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000891 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 381666000892 Protein of unknown function DUF45; Region: DUF45; cl00636 381666000893 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666000894 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 381666000895 Beta protein; Region: Beta_protein; pfam14350 381666000896 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 381666000897 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 381666000898 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 381666000899 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666000900 active site 381666000901 metal binding site [ion binding]; metal-binding site 381666000902 I-site; other site 381666000903 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 381666000904 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 381666000905 PAAR motif; Region: PAAR_motif; cl15808 381666000906 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 381666000907 PAS domain; Region: PAS_9; pfam13426 381666000908 putative active site [active] 381666000909 heme pocket [chemical binding]; other site 381666000910 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666000911 metal binding site [ion binding]; metal-binding site 381666000912 active site 381666000913 I-site; other site 381666000914 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 381666000915 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 381666000916 putative active site [active] 381666000917 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 381666000918 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666000919 putative substrate translocation pore; other site 381666000920 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 381666000921 short chain dehydrogenase; Provisional; Region: PRK12829 381666000922 classical (c) SDRs; Region: SDR_c; cd05233 381666000923 NAD(P) binding site [chemical binding]; other site 381666000924 active site 381666000925 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666000926 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666000927 DNA-binding site [nucleotide binding]; DNA binding site 381666000928 FCD domain; Region: FCD; cl11656 381666000929 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666000930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666000931 NMT1-like family; Region: NMT1_2; cl15260 381666000932 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666000933 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 381666000934 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666000935 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 381666000936 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666000937 Predicted membrane protein [Function unknown]; Region: COG3766 381666000938 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 381666000939 Circularly permuted ATP-grasp type 2; Region: CP_ATPgrasp_2; cl00503 381666000940 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 381666000941 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 381666000942 Arginase family; Region: Arginase; cl00306 381666000943 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 381666000944 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 381666000945 Walker A/P-loop; other site 381666000946 ATP binding site [chemical binding]; other site 381666000947 Q-loop/lid; other site 381666000948 ABC transporter signature motif; other site 381666000949 Walker B; other site 381666000950 D-loop; other site 381666000951 H-loop/switch region; other site 381666000952 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666000953 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 381666000954 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 381666000955 putative PBP binding loops; other site 381666000956 dimer interface [polypeptide binding]; other site 381666000957 ABC-ATPase subunit interface; other site 381666000958 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666000959 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 381666000960 substrate binding pocket [chemical binding]; other site 381666000961 membrane-bound complex binding site; other site 381666000962 hinge residues; other site 381666000963 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666000964 Helix-turn-helix domains; Region: HTH; cl00088 381666000965 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666000966 Phospholipid methyltransferase; Region: PEMT; cl00763 381666000967 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 381666000968 homodimer interface [polypeptide binding]; other site 381666000969 chemical substrate binding site [chemical binding]; other site 381666000970 oligomer interface [polypeptide binding]; other site 381666000971 metal binding site [ion binding]; metal-binding site 381666000972 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 381666000973 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 381666000974 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 381666000975 S-adenosylmethionine binding site [chemical binding]; other site 381666000976 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 381666000977 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 381666000978 DNA binding residues [nucleotide binding] 381666000979 putative dimer interface [polypeptide binding]; other site 381666000980 putative metal binding residues [ion binding]; other site 381666000981 Cache domain; Region: Cache_1; pfam02743 381666000982 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 381666000983 dimerization interface [polypeptide binding]; other site 381666000984 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 381666000985 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666000986 dimer interface [polypeptide binding]; other site 381666000987 putative CheW interface [polypeptide binding]; other site 381666000988 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 381666000989 Protein of unknown function DUF72; Region: DUF72; cl00777 381666000990 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 381666000991 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 381666000992 ATP binding site [chemical binding]; other site 381666000993 Mg++ binding site [ion binding]; other site 381666000994 motif III; other site 381666000995 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 381666000996 nucleotide binding region [chemical binding]; other site 381666000997 ATP-binding site [chemical binding]; other site 381666000998 DbpA RNA binding domain; Region: DbpA; pfam03880 381666000999 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 381666001000 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666001001 Helix-turn-helix domains; Region: HTH; cl00088 381666001002 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 381666001003 FOG: CBS domain [General function prediction only]; Region: COG0517 381666001004 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 381666001005 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 381666001006 iron-sulfur cluster [ion binding]; other site 381666001007 [2Fe-2S] cluster binding site [ion binding]; other site 381666001008 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 381666001009 hydrophobic ligand binding site; other site 381666001010 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666001011 putative substrate translocation pore; other site 381666001012 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 381666001013 catalytic residues [active] 381666001014 dimer interface [polypeptide binding]; other site 381666001015 glutathionine S-transferase; Provisional; Region: PRK10542 381666001016 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 381666001017 C-terminal domain interface [polypeptide binding]; other site 381666001018 GSH binding site (G-site) [chemical binding]; other site 381666001019 dimer interface [polypeptide binding]; other site 381666001020 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 381666001021 dimer interface [polypeptide binding]; other site 381666001022 N-terminal domain interface [polypeptide binding]; other site 381666001023 substrate binding pocket (H-site) [chemical binding]; other site 381666001024 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666001025 dihydropyrimidinase; Provisional; Region: PRK13404 381666001026 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 381666001027 tetramer interface [polypeptide binding]; other site 381666001028 active site 381666001029 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666001030 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666001031 D-galactonate transporter; Region: 2A0114; TIGR00893 381666001032 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666001033 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666001034 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666001035 DNA-binding site [nucleotide binding]; DNA binding site 381666001036 FCD domain; Region: FCD; cl11656 381666001037 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 381666001038 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 381666001039 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 381666001040 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 381666001041 metal binding site [ion binding]; metal-binding site 381666001042 putative dimer interface [polypeptide binding]; other site 381666001043 Cupin domain; Region: Cupin_2; cl09118 381666001044 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666001045 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666001046 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666001047 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666001048 putative substrate translocation pore; other site 381666001049 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666001050 Helix-turn-helix domains; Region: HTH; cl00088 381666001051 EamA-like transporter family; Region: EamA; cl01037 381666001052 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 381666001053 EamA-like transporter family; Region: EamA; cl01037 381666001054 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666001055 NMT1-like family; Region: NMT1_2; cl15260 381666001056 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666001057 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666001058 active site 381666001059 phosphorylation site [posttranslational modification] 381666001060 intermolecular recognition site; other site 381666001061 dimerization interface [polypeptide binding]; other site 381666001062 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 381666001063 DNA binding site [nucleotide binding] 381666001064 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666001065 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666001066 active site 381666001067 phosphorylation site [posttranslational modification] 381666001068 intermolecular recognition site; other site 381666001069 dimerization interface [polypeptide binding]; other site 381666001070 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 381666001071 DNA binding site [nucleotide binding] 381666001072 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666001073 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 381666001074 trimer interface [polypeptide binding]; other site 381666001075 eyelet of channel; other site 381666001076 Septum formation topological specificity factor MinE; Region: MinE; cl00538 381666001077 cell division inhibitor MinD; Provisional; Region: PRK10818 381666001078 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 381666001079 Switch I; other site 381666001080 Switch II; other site 381666001081 septum formation inhibitor; Reviewed; Region: PRK01973 381666001082 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 381666001083 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 381666001084 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 381666001085 Sel1 repeat; Region: Sel1; cl02723 381666001086 Sel1 repeat; Region: Sel1; cl02723 381666001087 Sel1 repeat; Region: Sel1; cl02723 381666001088 Sel1 repeat; Region: Sel1; cl02723 381666001089 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 381666001090 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 381666001091 DNA binding residues [nucleotide binding] 381666001092 putative dimer interface [polypeptide binding]; other site 381666001093 Helix-turn-helix domains; Region: HTH; cl00088 381666001094 cell density-dependent motility repressor; Provisional; Region: PRK10082 381666001095 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 381666001096 dimerization interface [polypeptide binding]; other site 381666001097 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666001098 NMT1-like family; Region: NMT1_2; cl15260 381666001099 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 381666001100 putative active site [active] 381666001101 Zn binding site [ion binding]; other site 381666001102 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 381666001103 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 381666001104 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 381666001105 homodimer interface [polypeptide binding]; other site 381666001106 active site 381666001107 TDP-binding site; other site 381666001108 acceptor substrate-binding pocket; other site 381666001109 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 381666001110 Helix-turn-helix domains; Region: HTH; cl00088 381666001111 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 381666001112 putative dimerization interface [polypeptide binding]; other site 381666001113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666001114 NMT1-like family; Region: NMT1_2; cl15260 381666001115 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666001116 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666001117 enoyl-CoA hydratase; Provisional; Region: PRK07658 381666001118 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 381666001119 substrate binding site [chemical binding]; other site 381666001120 oxyanion hole (OAH) forming residues; other site 381666001121 trimer interface [polypeptide binding]; other site 381666001122 Viral RNA dependent RNA polymerase; Region: RdRP_3; pfam00998 381666001123 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 381666001124 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666001125 FAD binding site [chemical binding]; other site 381666001126 substrate binding site [chemical binding]; other site 381666001127 catalytic base [active] 381666001128 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666001129 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666001130 active site 381666001131 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666001132 NMT1-like family; Region: NMT1_2; cl15260 381666001133 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 381666001134 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 381666001135 trmE is a tRNA modification GTPase; Region: trmE; cd04164 381666001136 G1 box; other site 381666001137 GTP/Mg2+ binding site [chemical binding]; other site 381666001138 Switch I region; other site 381666001139 G2 box; other site 381666001140 Switch II region; other site 381666001141 G3 box; other site 381666001142 G4 box; other site 381666001143 G5 box; other site 381666001144 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 381666001145 CHAD domain; Region: CHAD; cl10506 381666001146 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 381666001147 CoenzymeA binding site [chemical binding]; other site 381666001148 subunit interaction site [polypeptide binding]; other site 381666001149 PHB binding site; other site 381666001150 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 381666001151 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666001152 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 381666001153 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 381666001154 S-adenosylmethionine binding site [chemical binding]; other site 381666001155 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 381666001156 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 381666001157 GatB domain; Region: GatB_Yqey; cl11497 381666001158 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 381666001159 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; cl12031 381666001160 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 381666001161 Amidase; Region: Amidase; cl11426 381666001162 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 381666001163 rod shape-determining protein MreB; Provisional; Region: PRK13927 381666001164 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 381666001165 ATP binding site [chemical binding]; other site 381666001166 Cell division protein FtsA; Region: FtsA; cl11496 381666001167 rod shape-determining protein MreC; Provisional; Region: PRK13922 381666001168 rod shape-determining protein MreC; Region: MreC; pfam04085 381666001169 rod shape-determining protein MreD; Region: MreD; cl01087 381666001170 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 381666001171 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 381666001172 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666001173 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 381666001174 GAF domain; Region: GAF; cl15785 381666001175 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666001176 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 381666001177 active site 381666001178 DNA binding site [nucleotide binding] 381666001179 Int/Topo IB signature motif; other site 381666001180 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666001181 Helix-turn-helix domains; Region: HTH; cl00088 381666001182 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 381666001183 dimerization interface [polypeptide binding]; other site 381666001184 substrate binding pocket [chemical binding]; other site 381666001185 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 381666001186 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 381666001187 lipoyl synthase; Provisional; Region: PRK05481 381666001188 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 381666001189 FeS/SAM binding site; other site 381666001190 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 381666001191 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 381666001192 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 381666001193 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 381666001194 putative active site [active] 381666001195 Protein of unknown function (DUF969); Region: DUF969; cl01573 381666001196 Protein of unknown function (DUF979); Region: DUF979; cl01572 381666001197 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 381666001198 putative substrate binding pocket [chemical binding]; other site 381666001199 AC domain interface; other site 381666001200 catalytic triad [active] 381666001201 AB domain interface; other site 381666001202 interchain disulfide; other site 381666001203 VanZ like family; Region: VanZ; cl01971 381666001204 Protein of unknown function (DUF330); Region: DUF330; cl01135 381666001205 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 381666001206 mce related protein; Region: MCE; pfam02470 381666001207 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 381666001208 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 381666001209 Walker A/P-loop; other site 381666001210 ATP binding site [chemical binding]; other site 381666001211 Q-loop/lid; other site 381666001212 ABC transporter signature motif; other site 381666001213 Walker B; other site 381666001214 D-loop; other site 381666001215 H-loop/switch region; other site 381666001216 Permease; Region: Permease; cl00510 381666001217 biotin--protein ligase; Provisional; Region: PRK06955 381666001218 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 381666001219 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 381666001220 Type III pantothenate kinase; Region: Pan_kinase; cl09130 381666001221 Sporulation related domain; Region: SPOR; cl10051 381666001222 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 381666001223 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 381666001224 active site 381666001225 nucleotide binding site [chemical binding]; other site 381666001226 HIGH motif; other site 381666001227 KMSKS motif; other site 381666001228 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 381666001229 dinuclear metal binding motif [ion binding]; other site 381666001230 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 381666001231 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 381666001232 active site 381666001233 nucleophile elbow; other site 381666001234 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666001235 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 381666001236 substrate binding site [chemical binding]; other site 381666001237 oxyanion hole (OAH) forming residues; other site 381666001238 trimer interface [polypeptide binding]; other site 381666001239 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 381666001240 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 381666001241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666001242 NMT1-like family; Region: NMT1_2; cl15260 381666001243 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666001244 Helix-turn-helix domains; Region: HTH; cl00088 381666001245 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666001246 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 381666001247 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 381666001248 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; cl12031 381666001249 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 381666001250 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 381666001251 active site residue [active] 381666001252 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 381666001253 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 381666001254 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 381666001255 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 381666001256 substrate binding pocket [chemical binding]; other site 381666001257 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 381666001258 B12 binding site [chemical binding]; other site 381666001259 cobalt ligand [ion binding]; other site 381666001260 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 381666001261 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666001262 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666001263 active site 381666001264 phosphorylation site [posttranslational modification] 381666001265 intermolecular recognition site; other site 381666001266 dimerization interface [polypeptide binding]; other site 381666001267 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 381666001268 DNA binding residues [nucleotide binding] 381666001269 dimerization interface [polypeptide binding]; other site 381666001270 Response regulator receiver domain; Region: Response_reg; pfam00072 381666001271 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666001272 active site 381666001273 phosphorylation site [posttranslational modification] 381666001274 intermolecular recognition site; other site 381666001275 dimerization interface [polypeptide binding]; other site 381666001276 CHASE3 domain; Region: CHASE3; cl05000 381666001277 Histidine kinase; Region: HisKA_3; pfam07730 381666001278 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 381666001279 ATP binding site [chemical binding]; other site 381666001280 Mg2+ binding site [ion binding]; other site 381666001281 G-X-G motif; other site 381666001282 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 381666001283 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 381666001284 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 381666001285 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 381666001286 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 381666001287 active site 381666001288 HIGH motif; other site 381666001289 KMSK motif region; other site 381666001290 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 381666001291 tRNA binding surface [nucleotide binding]; other site 381666001292 anticodon binding site; other site 381666001293 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 381666001294 Sporulation related domain; Region: SPOR; cl10051 381666001295 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 381666001296 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 381666001297 catalytic residues [active] 381666001298 hinge region; other site 381666001299 alpha helical domain; other site 381666001300 short chain dehydrogenase; Provisional; Region: PRK08251 381666001301 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666001302 NAD(P) binding site [chemical binding]; other site 381666001303 active site 381666001304 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 381666001305 intersubunit interface [polypeptide binding]; other site 381666001306 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666001307 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 381666001308 DNA binding residues [nucleotide binding] 381666001309 putative dimer interface [polypeptide binding]; other site 381666001310 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 381666001311 CoenzymeA binding site [chemical binding]; other site 381666001312 subunit interaction site [polypeptide binding]; other site 381666001313 PHB binding site; other site 381666001314 isovaleryl-CoA dehydrogenase; Region: PLN02519 381666001315 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 381666001316 substrate binding site [chemical binding]; other site 381666001317 FAD binding site [chemical binding]; other site 381666001318 catalytic base [active] 381666001319 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 381666001320 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 381666001321 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 381666001322 active site clefts [active] 381666001323 zinc binding site [ion binding]; other site 381666001324 dimer interface [polypeptide binding]; other site 381666001325 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 381666001326 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 381666001327 dimer interface [polypeptide binding]; other site 381666001328 active site 381666001329 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 381666001330 NADP binding site [chemical binding]; other site 381666001331 homodimer interface [polypeptide binding]; other site 381666001332 active site 381666001333 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666001334 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666001335 active site 381666001336 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 381666001337 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 381666001338 putative catalytic residue [active] 381666001339 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 381666001340 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 381666001341 active site 381666001342 motif I; other site 381666001343 motif II; other site 381666001344 hypothetical protein; Provisional; Region: PRK01842 381666001345 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 381666001346 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666001347 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 381666001348 putative C-terminal domain interface [polypeptide binding]; other site 381666001349 putative GSH binding site (G-site) [chemical binding]; other site 381666001350 putative dimer interface [polypeptide binding]; other site 381666001351 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 381666001352 N-terminal domain interface [polypeptide binding]; other site 381666001353 dimer interface [polypeptide binding]; other site 381666001354 substrate binding pocket (H-site) [chemical binding]; other site 381666001355 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 381666001356 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 381666001357 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 381666001358 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 381666001359 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; cl12031 381666001360 enoyl-CoA hydratase; Provisional; Region: PRK05995 381666001361 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 381666001362 substrate binding site [chemical binding]; other site 381666001363 oxyanion hole (OAH) forming residues; other site 381666001364 trimer interface [polypeptide binding]; other site 381666001365 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 381666001366 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 381666001367 inhibitor-cofactor binding pocket; inhibition site 381666001368 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666001369 catalytic residue [active] 381666001370 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 381666001371 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 381666001372 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666001373 catalytic residue [active] 381666001374 AAA domain; Region: AAA_26; pfam13500 381666001375 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666001376 biotin synthase; Region: bioB; TIGR00433 381666001377 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 381666001378 FeS/SAM binding site; other site 381666001379 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 381666001380 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 381666001381 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666001382 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 381666001383 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 381666001384 carboxyltransferase (CT) interaction site; other site 381666001385 biotinylation site [posttranslational modification]; other site 381666001386 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 381666001387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666001388 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 381666001389 active site 381666001390 catalytic residues [active] 381666001391 metal binding site [ion binding]; metal-binding site 381666001392 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 381666001393 putative deacylase active site [active] 381666001394 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 381666001395 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 381666001396 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666001397 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 381666001398 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 381666001399 N-terminal plug; other site 381666001400 ligand-binding site [chemical binding]; other site 381666001401 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 381666001402 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666001403 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666001404 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 381666001405 dihydrolipoamide succinyltransferase; Provisional; Region: PTZ00144 381666001406 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 381666001407 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 381666001408 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 381666001409 P-loop, Walker A motif; other site 381666001410 Base recognition motif; other site 381666001411 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 381666001412 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 381666001413 metal binding site 2 [ion binding]; metal-binding site 381666001414 putative DNA binding helix; other site 381666001415 metal binding site 1 [ion binding]; metal-binding site 381666001416 dimer interface [polypeptide binding]; other site 381666001417 structural Zn2+ binding site [ion binding]; other site 381666001418 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666001419 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666001420 NMT1-like family; Region: NMT1_2; cl15260 381666001421 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 381666001422 active site 381666001423 HslU subunit interaction site [polypeptide binding]; other site 381666001424 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 381666001425 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 381666001426 Walker A motif; other site 381666001427 ATP binding site [chemical binding]; other site 381666001428 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666001429 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 381666001430 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 381666001431 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666001432 active site 381666001433 phosphorylation site [posttranslational modification] 381666001434 intermolecular recognition site; other site 381666001435 dimerization interface [polypeptide binding]; other site 381666001436 Helix-turn-helix domains; Region: HTH; cl00088 381666001437 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666001438 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 381666001439 ATP binding site [chemical binding]; other site 381666001440 Mg2+ binding site [ion binding]; other site 381666001441 G-X-G motif; other site 381666001442 Protein of unknown function (DUF461); Region: DUF461; cl01071 381666001443 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 381666001444 Helix-turn-helix domains; Region: HTH; cl00088 381666001445 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 381666001446 putative substrate binding pocket [chemical binding]; other site 381666001447 putative dimerization interface [polypeptide binding]; other site 381666001448 Protein of unknown function, DUF606; Region: DUF606; cl01273 381666001449 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 381666001450 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 381666001451 feedback inhibition sensing region; other site 381666001452 homohexameric interface [polypeptide binding]; other site 381666001453 nucleotide binding site [chemical binding]; other site 381666001454 N-acetyl-L-glutamate binding site [chemical binding]; other site 381666001455 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 381666001456 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 381666001457 division inhibitor protein; Provisional; Region: slmA; PRK09480 381666001458 Helix-turn-helix domains; Region: HTH; cl00088 381666001459 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 381666001460 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; cl12031 381666001461 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 381666001462 S-adenosylmethionine binding site [chemical binding]; other site 381666001463 putative replication protein; Provisional; Region: PRK12377 381666001464 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 381666001465 putative dimer interface [polypeptide binding]; other site 381666001466 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666001467 Helix-turn-helix domains; Region: HTH; cl00088 381666001468 LysR family transcriptional regulator; Provisional; Region: PRK14997 381666001469 Helix-turn-helix domains; Region: HTH; cl00088 381666001470 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 381666001471 putative effector binding pocket; other site 381666001472 dimerization interface [polypeptide binding]; other site 381666001473 EamA-like transporter family; Region: EamA; cl01037 381666001474 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 381666001475 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 381666001476 CoenzymeA binding site [chemical binding]; other site 381666001477 subunit interaction site [polypeptide binding]; other site 381666001478 PHB binding site; other site 381666001479 muropeptide transporter; Validated; Region: ampG; PRK11010 381666001480 muropeptide transporter; Reviewed; Region: ampG; PRK11902 381666001481 Peptidase family M48; Region: Peptidase_M48; cl12018 381666001482 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 381666001483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666001484 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 381666001485 YokU-like protein; Region: YokU; cl15819 381666001486 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 381666001487 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 381666001488 putative active site [active] 381666001489 putative catalytic site [active] 381666001490 putative DNA binding site [nucleotide binding]; other site 381666001491 putative phosphate binding site [ion binding]; other site 381666001492 metal binding site A [ion binding]; metal-binding site 381666001493 putative AP binding site [nucleotide binding]; other site 381666001494 putative metal binding site B [ion binding]; other site 381666001495 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666001496 active site 381666001497 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 381666001498 nucleophile elbow; other site 381666001499 Patatin phospholipase; Region: DUF3734; pfam12536 381666001500 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 381666001501 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 381666001502 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 381666001503 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 381666001504 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 381666001505 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 381666001506 putative acyl-acceptor binding pocket; other site 381666001507 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 381666001508 putative acyl-acceptor binding pocket; other site 381666001509 S-adenosylmethionine synthetase; Validated; Region: PRK05250 381666001510 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 381666001511 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 381666001512 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 381666001513 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 381666001514 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 381666001515 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 381666001516 NAD(P) binding site [chemical binding]; other site 381666001517 catalytic residues [active] 381666001518 choline dehydrogenase; Validated; Region: PRK02106 381666001519 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 381666001520 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 381666001521 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666001522 active site 381666001523 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 381666001524 ThiC-associated domain; Region: ThiC-associated; pfam13667 381666001525 ThiC family; Region: ThiC; cl08031 381666001526 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 381666001527 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 381666001528 thiS-thiF/thiG interaction site; other site 381666001529 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 381666001530 ThiS interaction site; other site 381666001531 putative active site [active] 381666001532 tetramer interface [polypeptide binding]; other site 381666001533 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 381666001534 thiamine phosphate binding site [chemical binding]; other site 381666001535 active site 381666001536 pyrophosphate binding site [ion binding]; other site 381666001537 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666001538 Coenzyme A binding pocket [chemical binding]; other site 381666001539 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 381666001540 CoenzymeA binding site [chemical binding]; other site 381666001541 subunit interaction site [polypeptide binding]; other site 381666001542 PHB binding site; other site 381666001543 PGDYG protein; Region: PGDYG; pfam14083 381666001544 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 381666001545 dimer interface [polypeptide binding]; other site 381666001546 substrate binding site [chemical binding]; other site 381666001547 ATP binding site [chemical binding]; other site 381666001548 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 381666001549 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 381666001550 oligomerization interface [polypeptide binding]; other site 381666001551 active site 381666001552 NAD+ binding site [chemical binding]; other site 381666001553 Membrane protein of unknown function; Region: DUF360; cl00850 381666001554 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 381666001555 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 381666001556 FAD binding site [chemical binding]; other site 381666001557 TfoX N-terminal domain; Region: TfoX_N; cl01167 381666001558 Ubiquitin-like proteins; Region: UBQ; cl00155 381666001559 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 381666001560 Protein of unknown function DUF82; Region: DUF82; pfam01927 381666001561 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 381666001562 lytic murein transglycosylase; Provisional; Region: PRK11619 381666001563 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 catalyze...; Region: LT_GEWL; cd00254 381666001564 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666001565 catalytic residue [active] 381666001566 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 381666001567 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 381666001568 putative NAD(P) binding site [chemical binding]; other site 381666001569 active site 381666001570 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 381666001571 putative C-terminal domain interface [polypeptide binding]; other site 381666001572 putative GSH binding site (G-site) [chemical binding]; other site 381666001573 putative dimer interface [polypeptide binding]; other site 381666001574 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 381666001575 putative substrate binding pocket (H-site) [chemical binding]; other site 381666001576 putative N-terminal domain interface [polypeptide binding]; other site 381666001577 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 381666001578 active site 381666001579 NTP binding site [chemical binding]; other site 381666001580 metal binding triad [ion binding]; metal-binding site 381666001581 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 381666001582 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 381666001583 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 381666001584 Ligand Binding Site [chemical binding]; other site 381666001585 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 381666001586 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666001587 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 381666001588 Uncharacterized conserved protein [Function unknown]; Region: COG1565 381666001589 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 381666001590 pteridine reductase; Provisional; Region: PRK09135 381666001591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666001592 NAD(P) binding site [chemical binding]; other site 381666001593 active site 381666001594 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 381666001595 active site 381666001596 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 381666001597 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 381666001598 Ligand Binding Site [chemical binding]; other site 381666001599 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 381666001600 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 381666001601 Substrate binding site; other site 381666001602 Mg++ binding site; other site 381666001603 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 381666001604 active site 381666001605 substrate binding site [chemical binding]; other site 381666001606 CoA binding site [chemical binding]; other site 381666001607 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 381666001608 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 381666001609 glutaminase active site [active] 381666001610 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 381666001611 dimer interface [polypeptide binding]; other site 381666001612 active site 381666001613 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 381666001614 dimer interface [polypeptide binding]; other site 381666001615 active site 381666001616 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666001617 Helix-turn-helix domains; Region: HTH; cl00088 381666001618 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 381666001619 dimerization interface [polypeptide binding]; other site 381666001620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666001621 NMT1-like family; Region: NMT1_2; cl15260 381666001622 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 381666001623 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 381666001624 heme binding site [chemical binding]; other site 381666001625 ferroxidase pore; other site 381666001626 ferroxidase diiron center [ion binding]; other site 381666001627 amino-acid N-acetyltransferase; Region: PLN02825 381666001628 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666001629 Coenzyme A binding pocket [chemical binding]; other site 381666001630 Cation efflux family; Region: Cation_efflux; cl00316 381666001631 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 381666001632 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666001633 DNA-binding site [nucleotide binding]; DNA binding site 381666001634 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 381666001635 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666001636 homodimer interface [polypeptide binding]; other site 381666001637 catalytic residue [active] 381666001638 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 381666001639 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 381666001640 inhibitor-cofactor binding pocket; inhibition site 381666001641 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666001642 catalytic residue [active] 381666001643 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 381666001644 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666001645 tetrameric interface [polypeptide binding]; other site 381666001646 NAD binding site [chemical binding]; other site 381666001647 catalytic residues [active] 381666001648 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666001649 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 381666001650 dimer interface [polypeptide binding]; other site 381666001651 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 381666001652 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 381666001653 conserved cys residue [active] 381666001654 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666001655 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666001656 putative substrate translocation pore; other site 381666001657 amino acid transporter; Region: 2A0306; TIGR00909 381666001658 Spore germination protein; Region: Spore_permease; cl15802 381666001659 Spore germination protein; Region: Spore_permease; cl15802 381666001660 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 381666001661 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666001662 DNA-binding site [nucleotide binding]; DNA binding site 381666001663 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 381666001664 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666001665 homodimer interface [polypeptide binding]; other site 381666001666 catalytic residue [active] 381666001667 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 381666001668 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 381666001669 B12 binding site [chemical binding]; other site 381666001670 cobalt ligand [ion binding]; other site 381666001671 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 381666001672 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 381666001673 Walker A; other site 381666001674 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 381666001675 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 381666001676 putative active site [active] 381666001677 putative substrate binding site [chemical binding]; other site 381666001678 putative coenzyme B12 binding site [chemical binding]; other site 381666001679 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 381666001680 HIT family signature motif; other site 381666001681 catalytic residue [active] 381666001682 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 381666001683 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666001684 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666001685 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 381666001686 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 381666001687 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666001688 ligand binding site [chemical binding]; other site 381666001689 flexible hinge region; other site 381666001690 Helix-turn-helix domains; Region: HTH; cl00088 381666001691 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 381666001692 AMP-binding enzyme; Region: AMP-binding; cl15778 381666001693 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666001694 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 381666001695 Walker A/P-loop; other site 381666001696 ATP binding site [chemical binding]; other site 381666001697 Q-loop/lid; other site 381666001698 ABC transporter signature motif; other site 381666001699 Walker B; other site 381666001700 D-loop; other site 381666001701 H-loop/switch region; other site 381666001702 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 381666001703 TM-ABC transporter signature motif; other site 381666001704 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 381666001705 TM-ABC transporter signature motif; other site 381666001706 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 381666001707 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666001708 putative ligand binding site [chemical binding]; other site 381666001709 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666001710 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 381666001711 Walker A/P-loop; other site 381666001712 ATP binding site [chemical binding]; other site 381666001713 Q-loop/lid; other site 381666001714 ABC transporter signature motif; other site 381666001715 Walker B; other site 381666001716 D-loop; other site 381666001717 H-loop/switch region; other site 381666001718 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 381666001719 AMP-binding enzyme; Region: AMP-binding; cl15778 381666001720 AMP-binding enzyme; Region: AMP-binding; cl15778 381666001721 Protein of unknown function (DUF454); Region: DUF454; cl01063 381666001722 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 381666001723 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 381666001724 FMN binding site [chemical binding]; other site 381666001725 substrate binding site [chemical binding]; other site 381666001726 putative catalytic residue [active] 381666001727 sensory histidine kinase CreC; Provisional; Region: PRK11100 381666001728 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 381666001729 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 381666001730 dimer interface [polypeptide binding]; other site 381666001731 phosphorylation site [posttranslational modification] 381666001732 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 381666001733 ATP binding site [chemical binding]; other site 381666001734 Mg2+ binding site [ion binding]; other site 381666001735 G-X-G motif; other site 381666001736 DNA-binding response regulator CreB; Provisional; Region: PRK11083 381666001737 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666001738 active site 381666001739 phosphorylation site [posttranslational modification] 381666001740 intermolecular recognition site; other site 381666001741 dimerization interface [polypeptide binding]; other site 381666001742 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 381666001743 DNA binding site [nucleotide binding] 381666001744 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 381666001745 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 381666001746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666001747 active site 381666001748 phosphorylation site [posttranslational modification] 381666001749 intermolecular recognition site; other site 381666001750 dimerization interface [polypeptide binding]; other site 381666001751 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 381666001752 Walker A motif; other site 381666001753 ATP binding site [chemical binding]; other site 381666001754 Walker B motif; other site 381666001755 arginine finger; other site 381666001756 Helix-turn-helix domains; Region: HTH; cl00088 381666001757 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 381666001758 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 381666001759 dimer interface [polypeptide binding]; other site 381666001760 phosphorylation site [posttranslational modification] 381666001761 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 381666001762 ATP binding site [chemical binding]; other site 381666001763 G-X-G motif; other site 381666001764 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 381666001765 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 381666001766 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 381666001767 dimer interface [polypeptide binding]; other site 381666001768 [2Fe-2S] cluster binding site [ion binding]; other site 381666001769 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 381666001770 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; cl12031 381666001771 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 381666001772 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666001773 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 381666001774 Protein of unknown function (DUF493); Region: DUF493; cl01102 381666001775 PUA domain; Region: PUA; cl00607 381666001776 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 381666001777 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 381666001778 putative RNA binding site [nucleotide binding]; other site 381666001779 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 381666001780 S-adenosylmethionine binding site [chemical binding]; other site 381666001781 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 381666001782 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666001783 Family description; Region: UvrD_C_2; cl15862 381666001784 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 381666001785 catalytic residues [active] 381666001786 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 381666001787 catalytic residues [active] 381666001788 LysE type translocator; Region: LysE; cl00565 381666001789 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666001790 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666001791 DNA-binding site [nucleotide binding]; DNA binding site 381666001792 UTRA domain; Region: UTRA; cl01230 381666001793 PTS_IIA, PTS system, glucose/sucrose 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_glc; cl00162 381666001794 HPr interaction site; other site 381666001795 glycerol kinase (GK) interaction site [polypeptide binding]; other site 381666001796 active site 381666001797 phosphorylation site [posttranslational modification] 381666001798 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 381666001799 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 381666001800 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; cl09155 381666001801 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 381666001802 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 381666001803 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 381666001804 active site turn [active] 381666001805 phosphorylation site [posttranslational modification] 381666001806 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 381666001807 trimer interface [polypeptide binding]; other site 381666001808 eyelet of channel; other site 381666001809 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 381666001810 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 381666001811 active site 381666001812 dimer interface [polypeptide binding]; other site 381666001813 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 381666001814 dimer interface [polypeptide binding]; other site 381666001815 active site 381666001816 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 381666001817 dimer interface [polypeptide binding]; other site 381666001818 active site 381666001819 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 381666001820 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 381666001821 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 381666001822 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 381666001823 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 381666001824 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666001825 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 381666001826 Membrane fusogenic activity; Region: BMFP; cl01115 381666001827 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 381666001828 Nitrogen regulatory protein P-II; Region: P-II; cl00412 381666001829 Nitrogen regulatory protein P-II; Region: P-II; smart00938 381666001830 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 381666001831 Glutamate-cysteine ligase; Region: GshA; pfam08886 381666001832 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 381666001833 glutathione synthetase; Provisional; Region: PRK05246 381666001834 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 381666001835 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666001836 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 381666001837 active pocket/dimerization site; other site 381666001838 active site 381666001839 phosphorylation site [posttranslational modification] 381666001840 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 381666001841 dimerization domain swap beta strand [polypeptide binding]; other site 381666001842 regulatory protein interface [polypeptide binding]; other site 381666001843 active site 381666001844 regulatory phosphorylation site [posttranslational modification]; other site 381666001845 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 381666001846 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 381666001847 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 381666001848 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; cl09155 381666001849 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 381666001850 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 381666001851 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 381666001852 heme binding site [chemical binding]; other site 381666001853 ferroxidase pore; other site 381666001854 ferroxidase diiron center [ion binding]; other site 381666001855 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 381666001856 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 381666001857 active site residue [active] 381666001858 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 381666001859 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 381666001860 ATP binding site [chemical binding]; other site 381666001861 substrate interface [chemical binding]; other site 381666001862 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 381666001863 C-terminal peptidase (prc); Region: prc; TIGR00225 381666001864 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 381666001865 protein binding site [polypeptide binding]; other site 381666001866 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 381666001867 Catalytic dyad [active] 381666001868 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 381666001869 catalytic core [active] 381666001870 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 381666001871 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 381666001872 active site residue [active] 381666001873 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 381666001874 GSH binding site [chemical binding]; other site 381666001875 catalytic residues [active] 381666001876 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 381666001877 SecA binding site; other site 381666001878 Preprotein binding site; other site 381666001879 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 381666001880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666001881 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 381666001882 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666001883 NMT1-like family; Region: NMT1_2; cl15260 381666001884 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 381666001885 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 381666001886 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666001887 active site 381666001888 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 381666001889 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 381666001890 S-adenosylmethionine binding site [chemical binding]; other site 381666001891 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 381666001892 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 381666001893 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 381666001894 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 381666001895 Cytochrome c; Region: Cytochrom_C; cl11414 381666001896 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 381666001897 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 381666001898 Subunit I/III interface [polypeptide binding]; other site 381666001899 D-pathway; other site 381666001900 Subunit I/VIIc interface [polypeptide binding]; other site 381666001901 Subunit I/IV interface [polypeptide binding]; other site 381666001902 Subunit I/II interface [polypeptide binding]; other site 381666001903 Low-spin heme (heme a) binding site [chemical binding]; other site 381666001904 Subunit I/VIIa interface [polypeptide binding]; other site 381666001905 Subunit I/VIa interface [polypeptide binding]; other site 381666001906 Dimer interface; other site 381666001907 Putative water exit pathway; other site 381666001908 Binuclear center (heme a3/CuB) [ion binding]; other site 381666001909 K-pathway; other site 381666001910 Subunit I/Vb interface [polypeptide binding]; other site 381666001911 Putative proton exit pathway; other site 381666001912 Subunit I/VIb interface; other site 381666001913 Subunit I/VIc interface [polypeptide binding]; other site 381666001914 Electron transfer pathway; other site 381666001915 Subunit I/VIIIb interface [polypeptide binding]; other site 381666001916 Subunit I/VIIb interface [polypeptide binding]; other site 381666001917 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 381666001918 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 381666001919 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 381666001920 Subunit III/VIIa interface [polypeptide binding]; other site 381666001921 Phospholipid binding site [chemical binding]; other site 381666001922 Subunit I/III interface [polypeptide binding]; other site 381666001923 Subunit III/VIb interface [polypeptide binding]; other site 381666001924 Subunit III/VIa interface; other site 381666001925 Subunit III/Vb interface [polypeptide binding]; other site 381666001926 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 381666001927 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 381666001928 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 381666001929 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 381666001930 UbiA prenyltransferase family; Region: UbiA; cl00337 381666001931 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 381666001932 Cu(I) binding site [ion binding]; other site 381666001933 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 381666001934 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666001935 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 381666001936 DNA binding residues [nucleotide binding] 381666001937 Pirin-related protein [General function prediction only]; Region: COG1741 381666001938 Cupin domain; Region: Cupin_2; cl09118 381666001939 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 381666001940 glycosyl transferase family protein; Provisional; Region: PRK08136 381666001941 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 381666001942 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 381666001943 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 381666001944 Walker A/P-loop; other site 381666001945 ATP binding site [chemical binding]; other site 381666001946 Q-loop/lid; other site 381666001947 ABC transporter signature motif; other site 381666001948 Walker B; other site 381666001949 D-loop; other site 381666001950 H-loop/switch region; other site 381666001951 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 381666001952 dimer interface [polypeptide binding]; other site 381666001953 conserved gate region; other site 381666001954 putative PBP binding loops; other site 381666001955 ABC-ATPase subunit interface; other site 381666001956 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 381666001957 NMT1-like family; Region: NMT1_2; cl15260 381666001958 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 381666001959 ANTAR domain; Region: ANTAR; cl04297 381666001960 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 381666001961 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 381666001962 maleylacetoacetate isomerase; Region: maiA; TIGR01262 381666001963 C-terminal domain interface [polypeptide binding]; other site 381666001964 GSH binding site (G-site) [chemical binding]; other site 381666001965 putative dimer interface [polypeptide binding]; other site 381666001966 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 381666001967 dimer interface [polypeptide binding]; other site 381666001968 N-terminal domain interface [polypeptide binding]; other site 381666001969 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 381666001970 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 381666001971 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 381666001972 P loop; other site 381666001973 GTP binding site [chemical binding]; other site 381666001974 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 381666001975 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 381666001976 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 381666001977 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 381666001978 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 381666001979 Methyltransferase domain; Region: Methyltransf_31; pfam13847 381666001980 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 381666001981 S-adenosylmethionine binding site [chemical binding]; other site 381666001982 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 381666001983 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 381666001984 active site 381666001985 (T/H)XGH motif; other site 381666001986 ferredoxin; Validated; Region: PRK07118 381666001987 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 381666001988 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 381666001989 putative active site [active] 381666001990 catalytic residue [active] 381666001991 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 381666001992 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 381666001993 5S rRNA interface [nucleotide binding]; other site 381666001994 CTC domain interface [polypeptide binding]; other site 381666001995 L16 interface [polypeptide binding]; other site 381666001996 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 381666001997 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 381666001998 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666001999 active site 381666002000 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 381666002001 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 381666002002 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 381666002003 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 381666002004 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 381666002005 TPR motif; other site 381666002006 binding surface 381666002007 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 381666002008 binding surface 381666002009 TPR motif; other site 381666002010 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 381666002011 binding surface 381666002012 TPR motif; other site 381666002013 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 381666002014 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 381666002015 DNA binding site [nucleotide binding] 381666002016 catalytic residue [active] 381666002017 H2TH interface [polypeptide binding]; other site 381666002018 putative catalytic residues [active] 381666002019 turnover-facilitating residue; other site 381666002020 intercalation triad [nucleotide binding]; other site 381666002021 8OG recognition residue [nucleotide binding]; other site 381666002022 putative reading head residues; other site 381666002023 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 381666002024 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 381666002025 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666002026 Dynamin family; Region: Dynamin_N; pfam00350 381666002027 G1 box; other site 381666002028 GTP/Mg2+ binding site [chemical binding]; other site 381666002029 G2 box; other site 381666002030 Switch I region; other site 381666002031 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 381666002032 G3 box; other site 381666002033 Switch II region; other site 381666002034 GTP/Mg2+ binding site [chemical binding]; other site 381666002035 G4 box; other site 381666002036 G5 box; other site 381666002037 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 381666002038 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 381666002039 minor groove reading motif; other site 381666002040 helix-hairpin-helix signature motif; other site 381666002041 substrate binding pocket [chemical binding]; other site 381666002042 active site 381666002043 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 381666002044 DNA binding and oxoG recognition site [nucleotide binding] 381666002045 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 381666002046 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 381666002047 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 381666002048 psiF repeat; Region: PsiF_repeat; pfam07769 381666002049 HPr kinase/phosphorylase; Provisional; Region: PRK05428 381666002050 DRTGG domain; Region: DRTGG; cl12147 381666002051 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 381666002052 Hpr binding site; other site 381666002053 active site 381666002054 homohexamer subunit interaction site [polypeptide binding]; other site 381666002055 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 381666002056 active site 381666002057 phosphorylation site [posttranslational modification] 381666002058 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 A site; Region: RaiA; cd00552 381666002059 30S subunit binding site; other site 381666002060 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 381666002061 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 381666002062 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 381666002063 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 381666002064 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 381666002065 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 381666002066 Walker A/P-loop; other site 381666002067 ATP binding site [chemical binding]; other site 381666002068 Q-loop/lid; other site 381666002069 ABC transporter signature motif; other site 381666002070 Walker B; other site 381666002071 D-loop; other site 381666002072 H-loop/switch region; other site 381666002073 OstA-like protein; Region: OstA; cl00844 381666002074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 381666002075 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 381666002076 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 381666002077 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 381666002078 putative active site [active] 381666002079 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 381666002080 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 381666002081 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 381666002082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666002083 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; cl15357 381666002084 Ribbon-helix-helix domain; Region: RHH_4; cl01775 381666002085 intracellular protease, PfpI family; Region: PfpI; TIGR01382 381666002086 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 381666002087 conserved cys residue [active] 381666002088 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666002089 active site 381666002090 LysE type translocator; Region: LysE; cl00565 381666002091 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 381666002092 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 381666002093 PhoU domain; Region: PhoU; pfam01895 381666002094 PhoU domain; Region: PhoU; pfam01895 381666002095 Adenosine specific kinase; Region: Adenosine_kin; cl00796 381666002096 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 381666002097 catalytic core [active] 381666002098 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 381666002099 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 381666002100 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 381666002101 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 381666002102 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666002103 putative substrate translocation pore; other site 381666002104 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 381666002105 dimer interface [polypeptide binding]; other site 381666002106 ssDNA binding site [nucleotide binding]; other site 381666002107 tetramer (dimer of dimers) interface [polypeptide binding]; other site 381666002108 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 381666002109 eyelet of channel; other site 381666002110 trimer interface [polypeptide binding]; other site 381666002111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666002112 NMT1-like family; Region: NMT1_2; cl15260 381666002113 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 381666002114 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666002115 metal binding site [ion binding]; metal-binding site 381666002116 active site 381666002117 I-site; other site 381666002118 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 381666002119 Ion channel; Region: Ion_trans_2; cl11596 381666002120 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 381666002121 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 381666002122 putative active site [active] 381666002123 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 381666002124 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 381666002125 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 381666002126 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 381666002127 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 381666002128 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 381666002129 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666002130 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 381666002131 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 381666002132 ABC-2 type transporter; Region: ABC2_membrane; cl11417 381666002133 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 381666002134 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 381666002135 Walker A/P-loop; other site 381666002136 ATP binding site [chemical binding]; other site 381666002137 Q-loop/lid; other site 381666002138 ABC transporter signature motif; other site 381666002139 Walker B; other site 381666002140 D-loop; other site 381666002141 H-loop/switch region; other site 381666002142 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666002143 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666002144 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666002145 Helix-turn-helix domains; Region: HTH; cl00088 381666002146 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 381666002147 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 381666002148 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 381666002149 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 381666002150 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 381666002151 threonine dehydratase; Reviewed; Region: PRK09224 381666002152 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 381666002153 tetramer interface [polypeptide binding]; other site 381666002154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666002155 catalytic residue [active] 381666002156 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 381666002157 putative Ile/Val binding site [chemical binding]; other site 381666002158 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 381666002159 putative Ile/Val binding site [chemical binding]; other site 381666002160 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 381666002161 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 381666002162 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 381666002163 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 381666002164 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 381666002165 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 381666002166 active site 381666002167 homotetramer interface [polypeptide binding]; other site 381666002168 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 381666002169 aromatic arch; other site 381666002170 DCoH dimer interaction site [polypeptide binding]; other site 381666002171 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 381666002172 DCoH tetramer interaction site [polypeptide binding]; other site 381666002173 substrate binding site [chemical binding]; other site 381666002174 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 381666002175 metal-binding site 381666002176 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 381666002177 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 381666002178 XdhC Rossmann domain; Region: XdhC_C; pfam13478 381666002179 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 381666002180 putative hydrophobic ligand binding site [chemical binding]; other site 381666002181 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 381666002182 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 381666002183 metal ion-dependent adhesion site (MIDAS); other site 381666002184 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 381666002185 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 381666002186 Walker A motif; other site 381666002187 ATP binding site [chemical binding]; other site 381666002188 Walker B motif; other site 381666002189 arginine finger; other site 381666002190 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 381666002191 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 381666002192 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666002193 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 381666002194 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666002195 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666002196 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666002197 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 381666002198 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 381666002199 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666002200 FAD binding domain; Region: FAD_binding_4; pfam01565 381666002201 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 381666002202 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 381666002203 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 381666002204 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 381666002205 Cysteine-rich domain; Region: CCG; pfam02754 381666002206 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 381666002207 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 381666002208 HIT family signature motif; other site 381666002209 catalytic residue [active] 381666002210 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 381666002211 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 381666002212 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 381666002213 Protein of unknown function (DUF971); Region: DUF971; cl01414 381666002214 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 381666002215 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 381666002216 S-adenosylmethionine binding site [chemical binding]; other site 381666002217 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; cl16911 381666002218 Tim44-like domain; Region: Tim44; cl09208 381666002219 SCP-2 sterol transfer family; Region: SCP2; cl01225 381666002220 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666002221 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 381666002222 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 381666002223 S-adenosylmethionine binding site [chemical binding]; other site 381666002224 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 381666002225 Na binding site [ion binding]; other site 381666002226 putative glycosylation site [posttranslational modification]; other site 381666002227 putative glycosylation site [posttranslational modification]; other site 381666002228 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 381666002229 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 381666002230 Protein of unknown function (DUF502); Region: DUF502; cl01107 381666002231 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 381666002232 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 381666002233 dimer interface [polypeptide binding]; other site 381666002234 anticodon binding site; other site 381666002235 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 the...; Region: AspRS_core; cd00777 381666002236 homodimer interface [polypeptide binding]; other site 381666002237 motif 1; other site 381666002238 active site 381666002239 motif 2; other site 381666002240 GAD domain; Region: GAD; pfam02938 381666002241 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 the...; Region: AspRS_core; cd00777 381666002242 motif 3; other site 381666002243 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 381666002244 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 381666002245 nudix motif; other site 381666002246 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 381666002247 putative catalytic site [active] 381666002248 putative metal binding site [ion binding]; other site 381666002249 putative phosphate binding site [ion binding]; other site 381666002250 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 381666002251 Walker A motif; other site 381666002252 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 381666002253 putative active site [active] 381666002254 catalytic site [active] 381666002255 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 381666002256 putative active site [active] 381666002257 catalytic site [active] 381666002258 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666002259 Helix-turn-helix domains; Region: HTH; cl00088 381666002260 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 381666002261 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 381666002262 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 381666002263 FAD binding site [chemical binding]; other site 381666002264 substrate binding site [chemical binding]; other site 381666002265 catalytic residues [active] 381666002266 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 381666002267 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 381666002268 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666002269 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666002270 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 381666002271 substrate binding site [chemical binding]; other site 381666002272 oxyanion hole (OAH) forming residues; other site 381666002273 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 381666002274 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 381666002275 dimer interface [polypeptide binding]; other site 381666002276 active site 381666002277 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 381666002278 enoyl-CoA hydratase; Provisional; Region: PRK06688 381666002279 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 381666002280 substrate binding site [chemical binding]; other site 381666002281 oxyanion hole (OAH) forming residues; other site 381666002282 trimer interface [polypeptide binding]; other site 381666002283 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 381666002284 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 381666002285 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 381666002286 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 381666002287 Walker A/P-loop; other site 381666002288 ATP binding site [chemical binding]; other site 381666002289 Q-loop/lid; other site 381666002290 ABC transporter signature motif; other site 381666002291 Walker B; other site 381666002292 D-loop; other site 381666002293 H-loop/switch region; other site 381666002294 NMT1/THI5 like; Region: NMT1; pfam09084 381666002295 NMT1-like family; Region: NMT1_2; cl15260 381666002296 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 381666002297 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 381666002298 Walker A/P-loop; other site 381666002299 ATP binding site [chemical binding]; other site 381666002300 Q-loop/lid; other site 381666002301 ABC transporter signature motif; other site 381666002302 Walker B; other site 381666002303 D-loop; other site 381666002304 H-loop/switch region; other site 381666002305 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 381666002306 dimer interface [polypeptide binding]; other site 381666002307 conserved gate region; other site 381666002308 putative PBP binding loops; other site 381666002309 ABC-ATPase subunit interface; other site 381666002310 Helix-turn-helix domains; Region: HTH; cl00088 381666002311 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 381666002312 dimerization interface [polypeptide binding]; other site 381666002313 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 381666002314 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 381666002315 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 381666002316 NAD(P) binding site [chemical binding]; other site 381666002317 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 381666002318 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 381666002319 substrate binding pocket [chemical binding]; other site 381666002320 membrane-bound complex binding site; other site 381666002321 hinge residues; other site 381666002322 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666002323 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 381666002324 dimer interface [polypeptide binding]; other site 381666002325 conserved gate region; other site 381666002326 putative PBP binding loops; other site 381666002327 ABC-ATPase subunit interface; other site 381666002328 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666002329 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 381666002330 dimer interface [polypeptide binding]; other site 381666002331 conserved gate region; other site 381666002332 putative PBP binding loops; other site 381666002333 ABC-ATPase subunit interface; other site 381666002334 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 381666002335 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 381666002336 Walker A/P-loop; other site 381666002337 ATP binding site [chemical binding]; other site 381666002338 Q-loop/lid; other site 381666002339 ABC transporter signature motif; other site 381666002340 Walker B; other site 381666002341 D-loop; other site 381666002342 H-loop/switch region; other site 381666002343 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 381666002344 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 381666002345 putative active site [active] 381666002346 putative dimer interface [polypeptide binding]; other site 381666002347 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 381666002348 tartrate dehydrogenase; Provisional; Region: PRK08194 381666002349 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 381666002350 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 381666002351 MOFRL family; Region: MOFRL; pfam05161 381666002352 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 381666002353 active site 381666002354 substrate binding pocket [chemical binding]; other site 381666002355 dimer interface [polypeptide binding]; other site 381666002356 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 381666002357 OsmC-like protein; Region: OsmC; cl00767 381666002358 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 381666002359 23S rRNA interface [nucleotide binding]; other site 381666002360 L3 interface [polypeptide binding]; other site 381666002361 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 381666002362 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 381666002363 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 381666002364 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 381666002365 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666002366 Helix-turn-helix domains; Region: HTH; cl00088 381666002367 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 381666002368 dimerization interface [polypeptide binding]; other site 381666002369 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 381666002370 Peptidase family M23; Region: Peptidase_M23; pfam01551 381666002371 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 381666002372 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 381666002373 active site 381666002374 HIGH motif; other site 381666002375 dimer interface [polypeptide binding]; other site 381666002376 KMSKS motif; other site 381666002377 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 381666002378 RNA binding surface [nucleotide binding]; other site 381666002379 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 381666002380 putative active site [active] 381666002381 dimerization interface [polypeptide binding]; other site 381666002382 putative tRNAtyr binding site [nucleotide binding]; other site 381666002383 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 381666002384 substrate binding site [chemical binding]; other site 381666002385 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 381666002386 catalytic core [active] 381666002387 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 381666002388 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 381666002389 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 381666002390 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 381666002391 Walker A motif; other site 381666002392 ATP binding site [chemical binding]; other site 381666002393 Walker B motif; other site 381666002394 arginine finger; other site 381666002395 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 381666002396 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 381666002397 RuvA N terminal domain; Region: RuvA_N; pfam01330 381666002398 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 381666002399 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 381666002400 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 381666002401 putative active site [active] 381666002402 catalytic site [active] 381666002403 putative metal binding site [ion binding]; other site 381666002404 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 includes...; Region: RuvC_resolvase; cd00529 381666002405 active site 381666002406 putative DNA-binding cleft [nucleotide binding]; other site 381666002407 dimer interface [polypeptide binding]; other site 381666002408 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 381666002409 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 381666002410 purine monophosphate binding site [chemical binding]; other site 381666002411 dimer interface [polypeptide binding]; other site 381666002412 putative catalytic residues [active] 381666002413 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 381666002414 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 381666002415 Helix-turn-helix domains; Region: HTH; cl00088 381666002416 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 381666002417 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 381666002418 FMN binding site [chemical binding]; other site 381666002419 active site 381666002420 catalytic residues [active] 381666002421 substrate binding site [chemical binding]; other site 381666002422 hypothetical protein; Provisional; Region: PRK06996 381666002423 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666002424 proline aminopeptidase P II; Provisional; Region: PRK10879 381666002425 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 381666002426 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 381666002427 active site 381666002428 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 381666002429 Substrate binding site; other site 381666002430 metal-binding site 381666002431 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 381666002432 AzlC protein; Region: AzlC; cl00570 381666002433 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666002434 Phosphotransferase enzyme family; Region: APH; pfam01636 381666002435 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 381666002436 OstA-like protein; Region: OstA; cl00844 381666002437 OstA-like protein; Region: OstA; cl00844 381666002438 Organic solvent tolerance protein; Region: OstA_C; pfam04453 381666002439 SurA N-terminal domain; Region: SurA_N_3; cl07813 381666002440 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 381666002441 PPIC-type PPIASE domain; Region: Rotamase; cl08278 381666002442 PPIC-type PPIASE domain; Region: Rotamase; cl08278 381666002443 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 381666002444 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; cl16911 381666002445 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 381666002446 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 381666002447 active site 381666002448 HIGH motif; other site 381666002449 dimer interface [polypeptide binding]; other site 381666002450 KMSKS motif; other site 381666002451 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666002452 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 381666002453 dimer interface [polypeptide binding]; other site 381666002454 active site 381666002455 metal binding site [ion binding]; metal-binding site 381666002456 glutathione binding site [chemical binding]; other site 381666002457 Protein of unknown function DUF45; Region: DUF45; cl00636 381666002458 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 381666002459 putative acyl-acceptor binding pocket; other site 381666002460 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 381666002461 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 381666002462 active site 381666002463 motif I; other site 381666002464 motif II; other site 381666002465 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 381666002466 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 381666002467 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 381666002468 dimer interface [polypeptide binding]; other site 381666002469 motif 1; other site 381666002470 active site 381666002471 motif 2; other site 381666002472 motif 3; other site 381666002473 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 381666002474 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 381666002475 putative active site [active] 381666002476 catalytic triad [active] 381666002477 putative dimer interface [polypeptide binding]; other site 381666002478 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 381666002479 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 381666002480 Transporter associated domain; Region: CorC_HlyC; cl08393 381666002481 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 381666002482 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 381666002483 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666002484 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 381666002485 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 381666002486 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 381666002487 FeS/SAM binding site; other site 381666002488 TRAM domain; Region: TRAM; cl01282 381666002489 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 381666002490 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 381666002491 Cl- selectivity filter; other site 381666002492 Cl- binding residues [ion binding]; other site 381666002493 pore gating glutamate residue; other site 381666002494 dimer interface [polypeptide binding]; other site 381666002495 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 381666002496 helicase 45; Provisional; Region: PTZ00424 381666002497 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 381666002498 ATP binding site [chemical binding]; other site 381666002499 Mg++ binding site [ion binding]; other site 381666002500 motif III; other site 381666002501 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 381666002502 nucleotide binding region [chemical binding]; other site 381666002503 ATP-binding site [chemical binding]; other site 381666002504 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666002505 Phosphotransferase enzyme family; Region: APH; pfam01636 381666002506 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 381666002507 Ligand Binding Site [chemical binding]; other site 381666002508 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666002509 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666002510 transcriptional regulator FimZ; Provisional; Region: PRK09935 381666002511 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666002512 active site 381666002513 phosphorylation site [posttranslational modification] 381666002514 intermolecular recognition site; other site 381666002515 dimerization interface [polypeptide binding]; other site 381666002516 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 381666002517 DNA binding residues [nucleotide binding] 381666002518 dimerization interface [polypeptide binding]; other site 381666002519 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 381666002520 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 381666002521 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 381666002522 Peptidase M15; Region: Peptidase_M15_3; cl01194 381666002523 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666002524 putative substrate translocation pore; other site 381666002525 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666002526 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 381666002527 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 381666002528 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666002529 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 381666002530 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 381666002531 dimer interface [polypeptide binding]; other site 381666002532 phosphorylation site [posttranslational modification] 381666002533 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 381666002534 ATP binding site [chemical binding]; other site 381666002535 Mg2+ binding site [ion binding]; other site 381666002536 G-X-G motif; other site 381666002537 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 381666002538 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666002539 active site 381666002540 phosphorylation site [posttranslational modification] 381666002541 intermolecular recognition site; other site 381666002542 dimerization interface [polypeptide binding]; other site 381666002543 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 381666002544 DNA binding site [nucleotide binding] 381666002545 recombinase A; Provisional; Region: recA; PRK09354 381666002546 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 381666002547 hexamer interface [polypeptide binding]; other site 381666002548 Walker A motif; other site 381666002549 ATP binding site [chemical binding]; other site 381666002550 Walker B motif; other site 381666002551 RecX family; Region: RecX; cl00936 381666002552 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 381666002553 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 381666002554 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666002555 CoA-ligase; Region: Ligase_CoA; cl02894 381666002556 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 381666002557 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666002558 CoA-ligase; Region: Ligase_CoA; cl02894 381666002559 Integral membrane protein TerC family; Region: TerC; cl10468 381666002560 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 381666002561 O-Antigen ligase; Region: Wzy_C; cl04850 381666002562 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 381666002563 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 381666002564 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 381666002565 trimer interface [polypeptide binding]; other site 381666002566 dimer interface [polypeptide binding]; other site 381666002567 putative active site [active] 381666002568 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 381666002569 Peptidase family M48; Region: Peptidase_M48; cl12018 381666002570 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 381666002571 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 381666002572 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 381666002573 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 381666002574 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 381666002575 putative active site [active] 381666002576 Zinc-finger domain; Region: zf-CHCC; cl01821 381666002577 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 381666002578 homodimer interface [polypeptide binding]; other site 381666002579 substrate-cofactor binding pocket; other site 381666002580 catalytic residue [active] 381666002581 DEAD-like helicases superfamily; Region: DEXDc; smart00487 381666002582 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 381666002583 ATP binding site [chemical binding]; other site 381666002584 putative Mg++ binding site [ion binding]; other site 381666002585 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 381666002586 nucleotide binding region [chemical binding]; other site 381666002587 ATP-binding site [chemical binding]; other site 381666002588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666002589 NMT1-like family; Region: NMT1_2; cl15260 381666002590 Helix-turn-helix domains; Region: HTH; cl00088 381666002591 Helix-turn-helix domains; Region: HTH; cl00088 381666002592 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 381666002593 Phosphoglycerate kinase; Region: PGK; pfam00162 381666002594 substrate binding site [chemical binding]; other site 381666002595 hinge regions; other site 381666002596 ADP binding site [chemical binding]; other site 381666002597 catalytic site [active] 381666002598 pyruvate kinase; Provisional; Region: PRK05826 381666002599 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; cl09155 381666002600 domain interfaces; other site 381666002601 active site 381666002602 hypothetical protein; Provisional; Region: PRK08185 381666002603 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 381666002604 intersubunit interface [polypeptide binding]; other site 381666002605 active site 381666002606 zinc binding site [ion binding]; other site 381666002607 Na+ binding site [ion binding]; other site 381666002608 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 381666002609 ATP binding site [chemical binding]; other site 381666002610 active site 381666002611 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 381666002612 substrate binding site [chemical binding]; other site 381666002613 AIR carboxylase; Region: AIRC; cl00310 381666002614 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 381666002615 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666002616 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 381666002617 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 381666002618 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 381666002619 AzlC protein; Region: AzlC; cl00570 381666002620 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 381666002621 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666002622 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666002623 Helix-turn-helix domains; Region: HTH; cl00088 381666002624 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 381666002625 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 381666002626 putative ligand binding site [chemical binding]; other site 381666002627 hypothetical protein; Provisional; Region: PRK07538 381666002628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666002629 Predicted membrane protein [Function unknown]; Region: COG4125 381666002630 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 381666002631 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 381666002632 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666002633 Helix-turn-helix domains; Region: HTH; cl00088 381666002634 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 381666002635 dimerization interface [polypeptide binding]; other site 381666002636 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666002637 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 381666002638 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 381666002639 Protein export membrane protein; Region: SecD_SecF; cl14618 381666002640 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 381666002641 Protein export membrane protein; Region: SecD_SecF; cl14618 381666002642 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 381666002643 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666002644 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666002645 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666002646 active site 381666002647 phosphorylation site [posttranslational modification] 381666002648 intermolecular recognition site; other site 381666002649 dimerization interface [polypeptide binding]; other site 381666002650 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 381666002651 DNA binding site [nucleotide binding] 381666002652 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 381666002653 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 381666002654 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 381666002655 dimer interface [polypeptide binding]; other site 381666002656 phosphorylation site [posttranslational modification] 381666002657 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 381666002658 ATP binding site [chemical binding]; other site 381666002659 Mg2+ binding site [ion binding]; other site 381666002660 G-X-G motif; other site 381666002661 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 381666002662 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 381666002663 putative deacylase active site [active] 381666002664 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 381666002665 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 381666002666 active site 381666002667 Int/Topo IB signature motif; other site 381666002668 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 381666002669 DNA binding site [nucleotide binding] 381666002670 active site 381666002671 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666002672 NMT1-like family; Region: NMT1_2; cl15260 381666002673 Membrane transport protein; Region: Mem_trans; cl09117 381666002674 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 381666002675 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 381666002676 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 381666002677 AMIN domain; Region: AMIN; pfam11741 381666002678 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 381666002679 active site 381666002680 metal binding site [ion binding]; metal-binding site 381666002681 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 381666002682 Membrane transport protein; Region: Mem_trans; cl09117 381666002683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666002684 Helix-turn-helix domains; Region: HTH; cl00088 381666002685 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 381666002686 putative dimerization interface [polypeptide binding]; other site 381666002687 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 381666002688 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 381666002689 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 381666002690 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 381666002691 NAD binding site [chemical binding]; other site 381666002692 homodimer interface [polypeptide binding]; other site 381666002693 homotetramer interface [polypeptide binding]; other site 381666002694 active site 381666002695 adenylate kinase; Reviewed; Region: adk; PRK00279 381666002696 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 381666002697 AMP-binding site [chemical binding]; other site 381666002698 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 381666002699 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 381666002700 Ligand binding site; other site 381666002701 oligomer interface; other site 381666002702 Trm112p-like protein; Region: Trm112p; cl01066 381666002703 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 381666002704 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 381666002705 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 381666002706 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 381666002707 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 381666002708 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 381666002709 generic binding surface II; other site 381666002710 generic binding surface I; other site 381666002711 superoxide dismutase; Provisional; Region: PRK10543 381666002712 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 381666002713 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 381666002714 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 381666002715 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666002716 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666002717 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666002718 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666002719 Helix-turn-helix domains; Region: HTH; cl00088 381666002720 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666002721 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 381666002722 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; cl09155 381666002723 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 381666002724 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; cl12031 381666002725 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; cl12031 381666002726 substrate binding pocket [chemical binding]; other site 381666002727 catalytic triad [active] 381666002728 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR8; cd08273 381666002729 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666002730 putative NAD(P) binding site [chemical binding]; other site 381666002731 Isochorismatase family; Region: Isochorismatase; pfam00857 381666002732 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 381666002733 catalytic triad [active] 381666002734 dimer interface [polypeptide binding]; other site 381666002735 conserved cis-peptide bond; other site 381666002736 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 381666002737 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 381666002738 trimer interface [polypeptide binding]; other site 381666002739 eyelet of channel; other site 381666002740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666002741 NMT1-like family; Region: NMT1_2; cl15260 381666002742 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 381666002743 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 381666002744 active site 381666002745 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 381666002746 putative substrate binding pocket [chemical binding]; other site 381666002747 trimer interface [polypeptide binding]; other site 381666002748 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 381666002749 trimer interface [polypeptide binding]; other site 381666002750 eyelet of channel; other site 381666002751 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 381666002752 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 381666002753 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 381666002754 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 381666002755 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 381666002756 Lecithin:cholesterol acyltransferase; Region: LACT; pfam02450 381666002757 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; cl12031 381666002758 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666002759 Helix-turn-helix domains; Region: HTH; cl00088 381666002760 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 381666002761 putative dimerization interface [polypeptide binding]; other site 381666002762 Transcriptional regulators [Transcription]; Region: PurR; COG1609 381666002763 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 381666002764 DNA binding site [nucleotide binding] 381666002765 domain linker motif; other site 381666002766 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 381666002767 dimerization interface [polypeptide binding]; other site 381666002768 ligand binding site [chemical binding]; other site 381666002769 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 381666002770 NAD(P) binding site [chemical binding]; other site 381666002771 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 381666002772 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 381666002773 active site 381666002774 Cupin domain; Region: Cupin_2; cl09118 381666002775 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 381666002776 Fe-S cluster binding site [ion binding]; other site 381666002777 active site 381666002778 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 381666002779 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 381666002780 DNA-binding interface [nucleotide binding]; DNA binding site 381666002781 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 381666002782 Ferredoxin [Energy production and conversion]; Region: COG1146 381666002783 4Fe-4S binding domain; Region: Fer4; cl02805 381666002784 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 381666002785 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666002786 Helix-turn-helix domains; Region: HTH; cl00088 381666002787 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 381666002788 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 381666002789 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 381666002790 putative dimer interface [polypeptide binding]; other site 381666002791 [2Fe-2S] cluster binding site [ion binding]; other site 381666002792 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 381666002793 putative dimer interface [polypeptide binding]; other site 381666002794 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 381666002795 SLBB domain; Region: SLBB; pfam10531 381666002796 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 381666002797 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 381666002798 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 381666002799 catalytic loop [active] 381666002800 iron binding site [ion binding]; other site 381666002801 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 381666002802 4Fe-4S binding domain; Region: Fer4; cl02805 381666002803 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 381666002804 [4Fe-4S] binding site [ion binding]; other site 381666002805 molybdopterin cofactor binding site; other site 381666002806 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 381666002807 molybdopterin cofactor binding site; other site 381666002808 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 381666002809 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 381666002810 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 381666002811 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 381666002812 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 381666002813 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 381666002814 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 381666002815 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 381666002816 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 381666002817 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 381666002818 ImpE protein; Region: ImpE; pfam07024 381666002819 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 381666002820 Clp amino terminal domain; Region: Clp_N; pfam02861 381666002821 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 381666002822 Walker A motif; other site 381666002823 ATP binding site [chemical binding]; other site 381666002824 Walker B motif; other site 381666002825 arginine finger; other site 381666002826 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 381666002827 Walker A motif; other site 381666002828 ATP binding site [chemical binding]; other site 381666002829 Walker B motif; other site 381666002830 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 381666002831 Protein of unknown function (DUF770); Region: DUF770; cl01402 381666002832 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 381666002833 Protein of unknown function (DUF877); Region: DUF877; pfam05943 381666002834 Protein of unknown function (DUF796); Region: DUF796; cl01226 381666002835 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 381666002836 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 381666002837 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 381666002838 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 381666002839 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 381666002840 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 381666002841 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 381666002842 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 381666002843 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 381666002844 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 381666002845 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666002846 ligand binding site [chemical binding]; other site 381666002847 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 381666002848 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 381666002849 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 381666002850 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 381666002851 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 381666002852 Transglycosylase; Region: Transgly; cl07896 381666002853 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 381666002854 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 381666002855 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; cl15357 381666002856 transmembrane helices; other site 381666002857 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 381666002858 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 381666002859 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 381666002860 acetate kinase; Region: ackA; TIGR00016 381666002861 Acetokinase family; Region: Acetate_kinase; cl01029 381666002862 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 381666002863 Helix-turn-helix domains; Region: HTH; cl00088 381666002864 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 381666002865 TOBE domain; Region: TOBE_2; cl01440 381666002866 TOBE domain; Region: TOBE_2; cl01440 381666002867 LysE type translocator; Region: LysE; cl00565 381666002868 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 381666002869 putative active site [active] 381666002870 putative metal binding residues [ion binding]; other site 381666002871 signature motif; other site 381666002872 putative triphosphate binding site [ion binding]; other site 381666002873 dimer interface [polypeptide binding]; other site 381666002874 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666002875 Walker A/P-loop; other site 381666002876 ATP binding site [chemical binding]; other site 381666002877 ABC transporter; Region: ABC_tran; pfam00005 381666002878 Q-loop/lid; other site 381666002879 ABC transporter signature motif; other site 381666002880 Walker B; other site 381666002881 D-loop; other site 381666002882 H-loop/switch region; other site 381666002883 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 381666002884 putative PBP binding loops; other site 381666002885 ABC-ATPase subunit interface; other site 381666002886 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 381666002887 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 381666002888 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 381666002889 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666002890 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl16918 381666002891 Protein of unknown function (DUF330); Region: DUF330; cl01135 381666002892 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 381666002893 mce related protein; Region: MCE; pfam02470 381666002894 mce related protein; Region: MCE; pfam02470 381666002895 mce related protein; Region: MCE; pfam02470 381666002896 Paraquat-inducible protein A; Region: PqiA; pfam04403 381666002897 Paraquat-inducible protein A; Region: PqiA; pfam04403 381666002898 Domain of unknown function DUF20; Region: UPF0118; pfam01594 381666002899 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 381666002900 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 381666002901 HPP family; Region: HPP; pfam04982 381666002902 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 381666002903 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 381666002904 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666002905 Helix-turn-helix domains; Region: HTH; cl00088 381666002906 AsnC family; Region: AsnC_trans_reg; pfam01037 381666002907 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 381666002908 Amidinotransferase; Region: Amidinotransf; cl12043 381666002909 ornithine cyclodeaminase; Validated; Region: PRK07589 381666002910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666002911 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 381666002912 DNA binding residues [nucleotide binding] 381666002913 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 381666002914 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666002915 active site 381666002916 phosphorylation site [posttranslational modification] 381666002917 intermolecular recognition site; other site 381666002918 dimerization interface [polypeptide binding]; other site 381666002919 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 381666002920 Walker A motif; other site 381666002921 ATP binding site [chemical binding]; other site 381666002922 Walker B motif; other site 381666002923 arginine finger; other site 381666002924 Helix-turn-helix domains; Region: HTH; cl00088 381666002925 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 381666002926 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 381666002927 dimer interface [polypeptide binding]; other site 381666002928 phosphorylation site [posttranslational modification] 381666002929 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 381666002930 ATP binding site [chemical binding]; other site 381666002931 G-X-G motif; other site 381666002932 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 381666002933 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 381666002934 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666002935 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666002936 putative substrate translocation pore; other site 381666002937 urocanate hydratase; Provisional; Region: PRK05414 381666002938 putative diguanylate cyclase; Provisional; Region: PRK09776 381666002939 MASE1; Region: MASE1; pfam05231 381666002940 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 381666002941 putative active site [active] 381666002942 heme pocket [chemical binding]; other site 381666002943 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 381666002944 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 381666002945 putative active site [active] 381666002946 heme pocket [chemical binding]; other site 381666002947 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666002948 metal binding site [ion binding]; metal-binding site 381666002949 active site 381666002950 I-site; other site 381666002951 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 381666002952 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 381666002953 Cytochrome c; Region: Cytochrom_C; cl11414 381666002954 OpgC protein; Region: OpgC_C; cl00792 381666002955 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 381666002956 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 381666002957 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666002958 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666002959 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 381666002960 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666002961 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666002962 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; cl15306 381666002963 substrate binding pocket [chemical binding]; other site 381666002964 membrane-bound complex binding site; other site 381666002965 hinge residues; other site 381666002966 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 catalyze...; Region: LT_GEWL; cd00254 381666002967 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666002968 catalytic residue [active] 381666002969 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 381666002970 oligomerisation interface [polypeptide binding]; other site 381666002971 mobile loop; other site 381666002972 roof hairpin; other site 381666002973 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 381666002974 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 381666002975 ring oligomerisation interface [polypeptide binding]; other site 381666002976 ATP/Mg binding site [chemical binding]; other site 381666002977 stacking interactions; other site 381666002978 hinge regions; other site 381666002979 Fimbrial protein; Region: Fimbrial; cl01416 381666002980 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 381666002981 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 381666002982 putative active site [active] 381666002983 putative metal binding site [ion binding]; other site 381666002984 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 381666002985 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 381666002986 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 381666002987 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 381666002988 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 381666002989 ATP binding site [chemical binding]; other site 381666002990 Walker A motif; other site 381666002991 hexamer interface [polypeptide binding]; other site 381666002992 Walker B motif; other site 381666002993 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 381666002994 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666002995 active site 381666002996 phosphorylation site [posttranslational modification] 381666002997 intermolecular recognition site; other site 381666002998 dimerization interface [polypeptide binding]; other site 381666002999 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 381666003000 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 381666003001 TadE-like protein; Region: TadE; cl10688 381666003002 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 381666003003 TadE-like protein; Region: TadE; cl10688 381666003004 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 381666003005 TadE-like protein; Region: TadE; cl10688 381666003006 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 381666003007 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 381666003008 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 381666003009 putative ATP-dependent protease; Provisional; Region: PRK09862 381666003010 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 381666003011 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 381666003012 Walker A motif; other site 381666003013 ATP binding site [chemical binding]; other site 381666003014 Walker B motif; other site 381666003015 arginine finger; other site 381666003016 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 381666003017 Flp/Fap pilin component; Region: Flp_Fap; cl01585 381666003018 Flp/Fap pilin component; Region: Flp_Fap; cl01585 381666003019 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 381666003020 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 381666003021 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 381666003022 Ligand binding site; other site 381666003023 Putative Catalytic site; other site 381666003024 DXD motif; other site 381666003025 GtrA-like protein; Region: GtrA; cl00971 381666003026 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 381666003027 S-adenosylmethionine binding site [chemical binding]; other site 381666003028 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 381666003029 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 381666003030 Walker A motif; other site 381666003031 ATP binding site [chemical binding]; other site 381666003032 Walker B motif; other site 381666003033 arginine finger; other site 381666003034 Helix-turn-helix domains; Region: HTH; cl00088 381666003035 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666003036 Helix-turn-helix domains; Region: HTH; cl00088 381666003037 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 381666003038 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 381666003039 dimerization interface [polypeptide binding]; other site 381666003040 substrate binding pocket [chemical binding]; other site 381666003041 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666003042 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666003043 putative substrate translocation pore; other site 381666003044 Repair protein; Region: Repair_PSII; cl01535 381666003045 Repair protein; Region: Repair_PSII; cl01535 381666003046 LemA family; Region: LemA; cl00742 381666003047 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 381666003048 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 381666003049 inhibitor-cofactor binding pocket; inhibition site 381666003050 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666003051 catalytic residue [active] 381666003052 Rubredoxin [Energy production and conversion]; Region: COG1773 381666003053 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 381666003054 iron binding site [ion binding]; other site 381666003055 Response regulator receiver domain; Region: Response_reg; pfam00072 381666003056 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666003057 active site 381666003058 phosphorylation site [posttranslational modification] 381666003059 intermolecular recognition site; other site 381666003060 dimerization interface [polypeptide binding]; other site 381666003061 Response regulator receiver domain; Region: Response_reg; pfam00072 381666003062 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666003063 active site 381666003064 phosphorylation site [posttranslational modification] 381666003065 intermolecular recognition site; other site 381666003066 dimerization interface [polypeptide binding]; other site 381666003067 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 381666003068 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 381666003069 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 381666003070 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666003071 dimer interface [polypeptide binding]; other site 381666003072 putative CheW interface [polypeptide binding]; other site 381666003073 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 381666003074 putative binding surface; other site 381666003075 active site 381666003076 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 381666003077 putative binding surface; other site 381666003078 active site 381666003079 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 381666003080 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 381666003081 ATP binding site [chemical binding]; other site 381666003082 Mg2+ binding site [ion binding]; other site 381666003083 G-X-G motif; other site 381666003084 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 381666003085 Response regulator receiver domain; Region: Response_reg; pfam00072 381666003086 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666003087 active site 381666003088 phosphorylation site [posttranslational modification] 381666003089 intermolecular recognition site; other site 381666003090 dimerization interface [polypeptide binding]; other site 381666003091 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666003092 D-galactonate transporter; Region: 2A0114; TIGR00893 381666003093 putative substrate translocation pore; other site 381666003094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666003095 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666003096 NAD(P) binding site [chemical binding]; other site 381666003097 active site 381666003098 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666003099 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 381666003100 NAD(P) binding site [chemical binding]; other site 381666003101 catalytic residues [active] 381666003102 catalytic residues [active] 381666003103 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 381666003104 dimer interface [polypeptide binding]; other site 381666003105 substrate binding site [chemical binding]; other site 381666003106 metal binding sites [ion binding]; metal-binding site 381666003107 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 381666003108 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666003109 Protein of unknown function, DUF482; Region: DUF482; pfam04339 381666003110 NAD synthetase; Reviewed; Region: nadE; PRK02628 381666003111 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 381666003112 multimer interface [polypeptide binding]; other site 381666003113 active site 381666003114 catalytic triad [active] 381666003115 protein interface 1 [polypeptide binding]; other site 381666003116 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 381666003117 homodimer interface [polypeptide binding]; other site 381666003118 NAD binding pocket [chemical binding]; other site 381666003119 ATP binding pocket [chemical binding]; other site 381666003120 Mg binding site [ion binding]; other site 381666003121 active-site loop [active] 381666003122 Nitrogen regulatory protein P-II; Region: P-II; cl00412 381666003123 Nitrogen regulatory protein P-II; Region: P-II; smart00938 381666003124 Predicted membrane protein [Function unknown]; Region: COG2860 381666003125 UPF0126 domain; Region: UPF0126; pfam03458 381666003126 UPF0126 domain; Region: UPF0126; pfam03458 381666003127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 381666003128 Smr domain; Region: Smr; cl02619 381666003129 thioredoxin reductase; Provisional; Region: PRK10262 381666003130 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666003131 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 381666003132 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666003133 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 381666003134 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 381666003135 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 381666003136 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 381666003137 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 381666003138 tetramer interface [polypeptide binding]; other site 381666003139 catalytic Zn binding site [ion binding]; other site 381666003140 NADP binding site [chemical binding]; other site 381666003141 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 381666003142 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 381666003143 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 381666003144 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 381666003145 dimer interface [polypeptide binding]; other site 381666003146 conserved gate region; other site 381666003147 putative PBP binding loops; other site 381666003148 ABC-ATPase subunit interface; other site 381666003149 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 381666003150 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 381666003151 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666003152 Walker A/P-loop; other site 381666003153 ATP binding site [chemical binding]; other site 381666003154 Q-loop/lid; other site 381666003155 ABC transporter signature motif; other site 381666003156 Walker B; other site 381666003157 D-loop; other site 381666003158 H-loop/switch region; other site 381666003159 TOBE domain; Region: TOBE_2; cl01440 381666003160 recombination factor protein RarA; Reviewed; Region: PRK13342 381666003161 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 381666003162 Walker A motif; other site 381666003163 ATP binding site [chemical binding]; other site 381666003164 Walker B motif; other site 381666003165 arginine finger; other site 381666003166 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 381666003167 seryl-tRNA synthetase; Provisional; Region: PRK05431 381666003168 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 381666003169 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 bound...; Region: SerRS_core; cd00770 381666003170 dimer interface [polypeptide binding]; other site 381666003171 active site 381666003172 motif 1; other site 381666003173 motif 2; other site 381666003174 motif 3; other site 381666003175 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 381666003176 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 381666003177 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 381666003178 active site 381666003179 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 381666003180 Domain of unknown function DUF21; Region: DUF21; pfam01595 381666003181 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 381666003182 Transporter associated domain; Region: CorC_HlyC; cl08393 381666003183 Helix-turn-helix domains; Region: HTH; cl00088 381666003184 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 381666003185 dimerization interface [polypeptide binding]; other site 381666003186 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 381666003187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666003188 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 381666003189 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666003190 substrate binding pocket [chemical binding]; other site 381666003191 membrane-bound complex binding site; other site 381666003192 hinge residues; other site 381666003193 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666003194 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 381666003195 substrate binding pocket [chemical binding]; other site 381666003196 membrane-bound complex binding site; other site 381666003197 hinge residues; other site 381666003198 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666003199 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 381666003200 dimer interface [polypeptide binding]; other site 381666003201 conserved gate region; other site 381666003202 putative PBP binding loops; other site 381666003203 ABC-ATPase subunit interface; other site 381666003204 cyanophycin synthetase; Provisional; Region: PRK14016 381666003205 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666003206 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 381666003207 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 381666003208 cyanophycin synthetase; Provisional; Region: PRK14016 381666003209 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666003210 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 381666003211 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 381666003212 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 381666003213 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 381666003214 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 381666003215 Walker A/P-loop; other site 381666003216 ATP binding site [chemical binding]; other site 381666003217 Q-loop/lid; other site 381666003218 ABC transporter signature motif; other site 381666003219 Walker B; other site 381666003220 D-loop; other site 381666003221 H-loop/switch region; other site 381666003222 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 381666003223 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 381666003224 Fimbrial protein; Region: Fimbrial; cl01416 381666003225 PAS domain S-box; Region: sensory_box; TIGR00229 381666003226 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 381666003227 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 381666003228 Histidine kinase; Region: HisKA_3; pfam07730 381666003229 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 381666003230 ATP binding site [chemical binding]; other site 381666003231 Mg2+ binding site [ion binding]; other site 381666003232 G-X-G motif; other site 381666003233 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666003234 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666003235 active site 381666003236 phosphorylation site [posttranslational modification] 381666003237 intermolecular recognition site; other site 381666003238 dimerization interface [polypeptide binding]; other site 381666003239 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 381666003240 DNA binding residues [nucleotide binding] 381666003241 dimerization interface [polypeptide binding]; other site 381666003242 cytosine deaminase; Provisional; Region: PRK05985 381666003243 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 381666003244 active site 381666003245 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 381666003246 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 381666003247 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 381666003248 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 381666003249 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 381666003250 motif II; other site 381666003251 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 381666003252 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 381666003253 S-adenosylmethionine binding site [chemical binding]; other site 381666003254 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666003255 ligand binding site [chemical binding]; other site 381666003256 DNA gyrase subunit A; Validated; Region: PRK05560 381666003257 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 in DNA...; Region: TOP4c; cd00187 381666003258 CAP-like domain; other site 381666003259 active site 381666003260 primary dimer interface [polypeptide binding]; other site 381666003261 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 381666003262 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 381666003263 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 381666003264 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 381666003265 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 381666003266 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 381666003267 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 381666003268 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 381666003269 homodimer interface [polypeptide binding]; other site 381666003270 substrate-cofactor binding pocket; other site 381666003271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666003272 catalytic residue [active] 381666003273 Chorismate mutase type II; Region: CM_2; cl00693 381666003274 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 381666003275 Prephenate dehydratase; Region: PDT; pfam00800 381666003276 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 381666003277 putative L-Phe binding site [chemical binding]; other site 381666003278 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 381666003279 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 381666003280 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666003281 homodimer interface [polypeptide binding]; other site 381666003282 catalytic residue [active] 381666003283 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666003284 Prephenate dehydrogenase; Region: PDH; pfam02153 381666003285 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 381666003286 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 381666003287 hinge; other site 381666003288 active site 381666003289 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 381666003290 cytidylate kinase; Provisional; Region: cmk; PRK00023 381666003291 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 381666003292 CMP-binding site; other site 381666003293 The sites determining sugar specificity; other site 381666003294 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 381666003295 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 381666003296 RNA binding site [nucleotide binding]; other site 381666003297 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 381666003298 RNA binding site [nucleotide binding]; other site 381666003299 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 381666003300 RNA binding site [nucleotide binding]; other site 381666003301 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 of...; Region: S1_RPS1_repeat_ec4; cd05689 381666003302 RNA binding site [nucleotide binding]; other site 381666003303 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 of...; Region: S1_RPS1_repeat_ec5; cd05690 381666003304 RNA binding site [nucleotide binding]; other site 381666003305 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 of...; Region: S1_RPS1_repeat_ec6; cd05691 381666003306 RNA binding site [nucleotide binding]; other site 381666003307 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 381666003308 IHF dimer interface [polypeptide binding]; other site 381666003309 IHF - DNA interface [nucleotide binding]; other site 381666003310 tetratricopeptide repeat protein; Provisional; Region: PRK11788 381666003311 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 381666003312 binding surface 381666003313 TPR motif; other site 381666003314 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 381666003315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666003316 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 381666003317 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666003318 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 381666003319 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 381666003320 putative ribose interaction site [chemical binding]; other site 381666003321 putative ADP binding site [chemical binding]; other site 381666003322 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 381666003323 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 381666003324 NADP binding site [chemical binding]; other site 381666003325 homopentamer interface [polypeptide binding]; other site 381666003326 substrate binding site [chemical binding]; other site 381666003327 active site 381666003328 Protein of unknown function, DUF655; Region: DUF655; pfam04919 381666003329 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 381666003330 cysteine synthase B; Region: cysM; TIGR01138 381666003331 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 381666003332 dimer interface [polypeptide binding]; other site 381666003333 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666003334 catalytic residue [active] 381666003335 Transglycosylase SLT domain; Region: SLT_2; pfam13406 381666003336 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 catalyze...; Region: LT_GEWL; cd00254 381666003337 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666003338 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 381666003339 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 381666003340 enoyl-CoA hydratase; Validated; Region: PRK08139 381666003341 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 381666003342 substrate binding site [chemical binding]; other site 381666003343 oxyanion hole (OAH) forming residues; other site 381666003344 trimer interface [polypeptide binding]; other site 381666003345 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 381666003346 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 381666003347 Walker A/P-loop; other site 381666003348 ATP binding site [chemical binding]; other site 381666003349 Q-loop/lid; other site 381666003350 ABC transporter signature motif; other site 381666003351 Walker B; other site 381666003352 D-loop; other site 381666003353 H-loop/switch region; other site 381666003354 NIL domain; Region: NIL; cl09633 381666003355 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 381666003356 ABC-ATPase subunit interface; other site 381666003357 NMT1-like family; Region: NMT1_2; cl15260 381666003358 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 381666003359 Ligand binding site [chemical binding]; other site 381666003360 Electron transfer flavoprotein domain; Region: ETF; pfam01012 381666003361 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 381666003362 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 381666003363 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 381666003364 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 381666003365 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 381666003366 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666003367 active site 381666003368 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 381666003369 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 381666003370 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666003371 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666003372 Helix-turn-helix domains; Region: HTH; cl00088 381666003373 AsnC family; Region: AsnC_trans_reg; pfam01037 381666003374 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 381666003375 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 381666003376 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 381666003377 active site 381666003378 DNA binding site [nucleotide binding] 381666003379 Int/Topo IB signature motif; other site 381666003380 Response regulator receiver domain; Region: Response_reg; pfam00072 381666003381 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666003382 active site 381666003383 phosphorylation site [posttranslational modification] 381666003384 intermolecular recognition site; other site 381666003385 dimerization interface [polypeptide binding]; other site 381666003386 Heme NO binding associated; Region: HNOBA; pfam07701 381666003387 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 381666003388 cyclase homology domain; Region: CHD; cd07302 381666003389 nucleotidyl binding site; other site 381666003390 metal binding site [ion binding]; metal-binding site 381666003391 dimer interface [polypeptide binding]; other site 381666003392 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 381666003393 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 381666003394 putative active site [active] 381666003395 heme pocket [chemical binding]; other site 381666003396 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 381666003397 dimer interface [polypeptide binding]; other site 381666003398 phosphorylation site [posttranslational modification] 381666003399 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 381666003400 ATP binding site [chemical binding]; other site 381666003401 Mg2+ binding site [ion binding]; other site 381666003402 G-X-G motif; other site 381666003403 Response regulator receiver domain; Region: Response_reg; pfam00072 381666003404 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666003405 active site 381666003406 phosphorylation site [posttranslational modification] 381666003407 intermolecular recognition site; other site 381666003408 dimerization interface [polypeptide binding]; other site 381666003409 Peptidase family M23; Region: Peptidase_M23; pfam01551 381666003410 Cytochrome c; Region: Cytochrom_C; cl11414 381666003411 Cytochrome c; Region: Cytochrom_C; cl11414 381666003412 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 381666003413 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 381666003414 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 381666003415 homotrimer interaction site [polypeptide binding]; other site 381666003416 putative active site [active] 381666003417 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 381666003418 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 381666003419 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 381666003420 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 381666003421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666003422 NAD(P) binding site [chemical binding]; other site 381666003423 active site 381666003424 acyl-CoA synthetase; Validated; Region: PRK06188 381666003425 AMP-binding enzyme; Region: AMP-binding; cl15778 381666003426 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666003427 lipid-transfer protein; Provisional; Region: PRK08256 381666003428 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 381666003429 active site 381666003430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666003431 FAD dependent oxidoreductase; Region: DAO; pfam01266 381666003432 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 381666003433 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 381666003434 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666003435 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666003436 active site 381666003437 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 381666003438 Cytochrome c; Region: Cytochrom_C; cl11414 381666003439 Cytochrome c; Region: Cytochrom_C; cl11414 381666003440 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 381666003441 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 381666003442 putative active site [active] 381666003443 putative substrate binding site [chemical binding]; other site 381666003444 ATP binding site [chemical binding]; other site 381666003445 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 381666003446 classical (c) SDRs; Region: SDR_c; cd05233 381666003447 NAD(P) binding site [chemical binding]; other site 381666003448 active site 381666003449 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 381666003450 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 381666003451 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666003452 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 381666003453 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 381666003454 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 381666003455 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666003456 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 381666003457 trimer interface [polypeptide binding]; other site 381666003458 eyelet of channel; other site 381666003459 Helix-turn-helix domains; Region: HTH; cl00088 381666003460 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 381666003461 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666003462 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 381666003463 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666003464 FAD dependent oxidoreductase; Region: DAO; pfam01266 381666003465 benzoate transport; Region: 2A0115; TIGR00895 381666003466 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666003467 putative substrate translocation pore; other site 381666003468 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 381666003469 homotrimer interaction site [polypeptide binding]; other site 381666003470 putative active site [active] 381666003471 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 381666003472 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 381666003473 active site 381666003474 metal binding site [ion binding]; metal-binding site 381666003475 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666003476 active site 381666003477 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666003478 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666003479 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 381666003480 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666003481 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 381666003482 DNA binding residues [nucleotide binding] 381666003483 dimerization interface [polypeptide binding]; other site 381666003484 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666003485 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 381666003486 substrate binding site [chemical binding]; other site 381666003487 oxyanion hole (OAH) forming residues; other site 381666003488 trimer interface [polypeptide binding]; other site 381666003489 acyl-CoA synthetase; Validated; Region: PRK06188 381666003490 AMP-binding enzyme; Region: AMP-binding; cl15778 381666003491 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666003492 acetyl-CoA acetyltransferase; Provisional; Region: PRK06065 381666003493 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 381666003494 active site 381666003495 acetyl-CoA acetyltransferase; Provisional; Region: PRK08313 381666003496 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 381666003497 active site 381666003498 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 381666003499 DUF35 OB-fold domain; Region: DUF35; pfam01796 381666003500 DUF35 OB-fold domain; Region: DUF35; pfam01796 381666003501 acyl-CoA synthetase; Validated; Region: PRK06188 381666003502 AMP-binding enzyme; Region: AMP-binding; cl15778 381666003503 AMP-binding enzyme; Region: AMP-binding; cl15778 381666003504 lipid-transfer protein; Provisional; Region: PRK08256 381666003505 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 381666003506 active site 381666003507 enoyl-CoA hydratase; Provisional; Region: PRK06688 381666003508 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 381666003509 substrate binding site [chemical binding]; other site 381666003510 oxyanion hole (OAH) forming residues; other site 381666003511 trimer interface [polypeptide binding]; other site 381666003512 short chain dehydrogenase; Provisional; Region: PRK07576 381666003513 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 381666003514 NAD(P) binding site [chemical binding]; other site 381666003515 substrate binding site [chemical binding]; other site 381666003516 homotetramer interface [polypeptide binding]; other site 381666003517 active site 381666003518 homodimer interface [polypeptide binding]; other site 381666003519 Secretory lipase; Region: LIP; pfam03583 381666003520 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 381666003521 putative active site [active] 381666003522 putative NTP binding site [chemical binding]; other site 381666003523 putative nucleic acid binding site [nucleotide binding]; other site 381666003524 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 381666003525 Transposase; Region: DDE_Tnp_ISL3; pfam01610 381666003526 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 381666003527 Catalytic domain of Protein Kinases; Region: PKc; cd00180 381666003528 active site 381666003529 ATP binding site [chemical binding]; other site 381666003530 substrate binding site [chemical binding]; other site 381666003531 activation loop (A-loop); other site 381666003532 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 381666003533 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 381666003534 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 381666003535 FeS/SAM binding site; other site 381666003536 transcriptional activator TtdR; Provisional; Region: PRK09801 381666003537 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 381666003538 putative effector binding pocket; other site 381666003539 dimerization interface [polypeptide binding]; other site 381666003540 TM2 domain; Region: TM2; cl00984 381666003541 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 381666003542 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 381666003543 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 381666003544 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 381666003545 RimM N-terminal domain; Region: RimM; pfam01782 381666003546 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 381666003547 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 381666003548 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 381666003549 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 381666003550 putative active site [active] 381666003551 putative CoA binding site [chemical binding]; other site 381666003552 nudix motif; other site 381666003553 metal binding site [ion binding]; metal-binding site 381666003554 rhodanese superfamily protein; Provisional; Region: PRK05320 381666003555 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 381666003556 active site residue [active] 381666003557 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 381666003558 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 381666003559 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 381666003560 generic binding surface II; other site 381666003561 generic binding surface I; other site 381666003562 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 381666003563 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 381666003564 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 381666003565 putative metal binding site; other site 381666003566 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 381666003567 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 381666003568 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 381666003569 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 381666003570 Walker A/P-loop; other site 381666003571 ATP binding site [chemical binding]; other site 381666003572 Q-loop/lid; other site 381666003573 ABC transporter signature motif; other site 381666003574 Walker B; other site 381666003575 D-loop; other site 381666003576 H-loop/switch region; other site 381666003577 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 381666003578 putative active site [active] 381666003579 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 381666003580 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666003581 ribonuclease G; Provisional; Region: PRK11712 381666003582 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 381666003583 homodimer interface [polypeptide binding]; other site 381666003584 oligonucleotide binding site [chemical binding]; other site 381666003585 Maf-like protein; Region: Maf; pfam02545 381666003586 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 381666003587 active site 381666003588 dimer interface [polypeptide binding]; other site 381666003589 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 381666003590 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 381666003591 Oligomerisation domain; Region: Oligomerisation; cl00519 381666003592 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 381666003593 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 381666003594 active site 381666003595 (T/H)XGH motif; other site 381666003596 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 381666003597 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 381666003598 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 381666003599 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666003600 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 381666003601 Transcriptional regulator; Region: Transcrip_reg; cl00361 381666003602 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 381666003603 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666003604 Walker A motif; other site 381666003605 ATP binding site [chemical binding]; other site 381666003606 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666003607 active site 381666003608 benzoate transport; Region: 2A0115; TIGR00895 381666003609 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666003610 putative substrate translocation pore; other site 381666003611 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666003612 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 381666003613 Cytochrome c; Region: Cytochrom_C; cl11414 381666003614 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666003615 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 381666003616 catalytic loop [active] 381666003617 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 381666003618 iron binding site [ion binding]; other site 381666003619 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666003620 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666003621 salicylate hydroxylase; Provisional; Region: PRK06475 381666003622 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666003623 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666003624 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 381666003625 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 381666003626 Isochorismatase family; Region: Isochorismatase; pfam00857 381666003627 catalytic triad [active] 381666003628 substrate binding site [chemical binding]; other site 381666003629 domain interfaces; other site 381666003630 conserved cis-peptide bond; other site 381666003631 Helix-turn-helix domains; Region: HTH; cl00088 381666003632 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 381666003633 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666003634 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666003635 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 381666003636 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666003637 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666003638 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666003639 Helix-turn-helix domains; Region: HTH; cl00088 381666003640 EamA-like transporter family; Region: EamA; cl01037 381666003641 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 381666003642 EamA-like transporter family; Region: EamA; cl01037 381666003643 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 381666003644 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 381666003645 putative NAD(P) binding site [chemical binding]; other site 381666003646 putative active site [active] 381666003647 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 381666003648 active site 381666003649 dimer interfaces [polypeptide binding]; other site 381666003650 catalytic residues [active] 381666003651 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 381666003652 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 381666003653 NADP binding site [chemical binding]; other site 381666003654 dimer interface [polypeptide binding]; other site 381666003655 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 381666003656 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 381666003657 putative ligand binding site [chemical binding]; other site 381666003658 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 381666003659 TM-ABC transporter signature motif; other site 381666003660 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 381666003661 TM-ABC transporter signature motif; other site 381666003662 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 381666003663 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 381666003664 Walker A/P-loop; other site 381666003665 ATP binding site [chemical binding]; other site 381666003666 Q-loop/lid; other site 381666003667 ABC transporter signature motif; other site 381666003668 Walker B; other site 381666003669 D-loop; other site 381666003670 H-loop/switch region; other site 381666003671 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 381666003672 Pirin-related protein [General function prediction only]; Region: COG1741 381666003673 Cupin domain; Region: Cupin_2; cl09118 381666003674 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 381666003675 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 381666003676 dimer interface [polypeptide binding]; other site 381666003677 conserved gate region; other site 381666003678 putative PBP binding loops; other site 381666003679 ABC-ATPase subunit interface; other site 381666003680 NMT1-like family; Region: NMT1_2; cl15260 381666003681 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 381666003682 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 381666003683 dimer interface [polypeptide binding]; other site 381666003684 conserved gate region; other site 381666003685 ABC-ATPase subunit interface; other site 381666003686 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 381666003687 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 381666003688 Walker A/P-loop; other site 381666003689 ATP binding site [chemical binding]; other site 381666003690 Q-loop/lid; other site 381666003691 ABC transporter signature motif; other site 381666003692 Walker B; other site 381666003693 D-loop; other site 381666003694 H-loop/switch region; other site 381666003695 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 381666003696 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 381666003697 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 381666003698 FeS/SAM binding site; other site 381666003699 HemN C-terminal domain; Region: HemN_C; pfam06969 381666003700 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 381666003701 active site 381666003702 dimerization interface [polypeptide binding]; other site 381666003703 ribonuclease PH; Reviewed; Region: rph; PRK00173 381666003704 Ribonuclease PH; Region: RNase_PH_bact; cd11362 381666003705 hexamer interface [polypeptide binding]; other site 381666003706 active site 381666003707 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 381666003708 active site 381666003709 Protein kinase domain; Region: Pkinase; pfam00069 381666003710 Catalytic domain of Protein Kinases; Region: PKc; cd00180 381666003711 active site 381666003712 ATP binding site [chemical binding]; other site 381666003713 substrate binding site [chemical binding]; other site 381666003714 activation loop (A-loop); other site 381666003715 hypothetical protein; Provisional; Region: PRK11820 381666003716 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 381666003717 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 381666003718 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 381666003719 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 381666003720 catalytic site [active] 381666003721 G-X2-G-X-G-K; other site 381666003722 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 381666003723 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 381666003724 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 381666003725 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 381666003726 synthetase active site [active] 381666003727 NTP binding site [chemical binding]; other site 381666003728 metal binding site [ion binding]; metal-binding site 381666003729 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 381666003730 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 381666003731 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 381666003732 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 381666003733 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 381666003734 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666003735 DNA-binding site [nucleotide binding]; DNA binding site 381666003736 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 381666003737 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 381666003738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666003739 homodimer interface [polypeptide binding]; other site 381666003740 catalytic residue [active] 381666003741 Uncharacterized conserved protein [Function unknown]; Region: COG2128 381666003742 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666003743 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 381666003744 Cupin domain; Region: Cupin_2; cl09118 381666003745 Domain of unknown function (DUF333); Region: DUF333; pfam03891 381666003746 PAS domain; Region: PAS_9; pfam13426 381666003747 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 381666003748 PAS domain; Region: PAS_9; pfam13426 381666003749 putative active site [active] 381666003750 heme pocket [chemical binding]; other site 381666003751 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666003752 metal binding site [ion binding]; metal-binding site 381666003753 active site 381666003754 I-site; other site 381666003755 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 381666003756 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666003757 DNA-binding site [nucleotide binding]; DNA binding site 381666003758 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 381666003759 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666003760 homodimer interface [polypeptide binding]; other site 381666003761 catalytic residue [active] 381666003762 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 381666003763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666003764 HI0933-like protein; Region: HI0933_like; pfam03486 381666003765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666003766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666003767 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 381666003768 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; cl16911 381666003769 Methyltransferase domain; Region: Methyltransf_31; pfam13847 381666003770 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 381666003771 putative DNA binding site [nucleotide binding]; other site 381666003772 putative Zn2+ binding site [ion binding]; other site 381666003773 TadE-like protein; Region: TadE; cl10688 381666003774 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 381666003775 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 381666003776 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 381666003777 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 381666003778 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 381666003779 phosphopeptide binding site; other site 381666003780 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 381666003781 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 381666003782 ATP binding site [chemical binding]; other site 381666003783 Walker A motif; other site 381666003784 hexamer interface [polypeptide binding]; other site 381666003785 Walker B motif; other site 381666003786 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 381666003787 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 381666003788 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 381666003789 TadE-like protein; Region: TadE; cl10688 381666003790 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666003791 ligand binding site [chemical binding]; other site 381666003792 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 catalyze...; Region: LT_GEWL; cd00254 381666003793 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666003794 catalytic residue [active] 381666003795 Protein of unknown function (DUF342); Region: DUF342; pfam03961 381666003796 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 381666003797 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 381666003798 putative active site [active] 381666003799 putative metal binding site [ion binding]; other site 381666003800 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666003801 FAD binding domain; Region: FAD_binding_4; pfam01565 381666003802 Berberine and berberine like; Region: BBE; pfam08031 381666003803 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 381666003804 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 381666003805 AMP binding site [chemical binding]; other site 381666003806 metal binding site [ion binding]; metal-binding site 381666003807 active site 381666003808 aminopeptidase N; Provisional; Region: pepN; PRK14015 381666003809 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 381666003810 active site 381666003811 Zn binding site [ion binding]; other site 381666003812 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 381666003813 malic enzyme; Reviewed; Region: PRK12862 381666003814 Malic enzyme, N-terminal domain; Region: malic; pfam00390 381666003815 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 381666003816 putative NAD(P) binding site [chemical binding]; other site 381666003817 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 381666003818 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 381666003819 trimer interface [polypeptide binding]; other site 381666003820 eyelet of channel; other site 381666003821 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 381666003822 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 381666003823 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 381666003824 active site 381666003825 catalytic site [active] 381666003826 tetramer interface [polypeptide binding]; other site 381666003827 xanthine permease; Region: pbuX; TIGR03173 381666003828 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666003829 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666003830 DNA-binding site [nucleotide binding]; DNA binding site 381666003831 FCD domain; Region: FCD; cl11656 381666003832 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 381666003833 active site 381666003834 homotetramer interface [polypeptide binding]; other site 381666003835 Predicted membrane protein [Function unknown]; Region: COG3748 381666003836 Protein of unknown function (DUF989); Region: DUF989; pfam06181 381666003837 Cytochrome c; Region: Cytochrom_C; cl11414 381666003838 Predicted membrane protein [Function unknown]; Region: COG2119 381666003839 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 381666003840 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 381666003841 Fatty acid desaturase; Region: FA_desaturase; pfam00487 381666003842 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 381666003843 putative di-iron ligands [ion binding]; other site 381666003844 guanine deaminase; Provisional; Region: PRK09228 381666003845 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 381666003846 active site 381666003847 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 381666003848 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 381666003849 active site 381666003850 purine riboside binding site [chemical binding]; other site 381666003851 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 381666003852 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 381666003853 XdhC Rossmann domain; Region: XdhC_C; pfam13478 381666003854 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 381666003855 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 381666003856 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666003857 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 381666003858 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 381666003859 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666003860 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 381666003861 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666003862 Helix-turn-helix domains; Region: HTH; cl00088 381666003863 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 381666003864 putative substrate binding pocket [chemical binding]; other site 381666003865 putative dimerization interface [polypeptide binding]; other site 381666003866 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 381666003867 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 381666003868 Helix-turn-helix domains; Region: HTH; cl00088 381666003869 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 381666003870 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 381666003871 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 381666003872 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 381666003873 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 381666003874 apolar tunnel; other site 381666003875 heme binding site [chemical binding]; other site 381666003876 dimerization interface [polypeptide binding]; other site 381666003877 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 381666003878 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 381666003879 Helix-turn-helix domains; Region: HTH; cl00088 381666003880 Bacterial transcriptional repressor; Region: TetR; pfam13972 381666003881 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 381666003882 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666003883 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 381666003884 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 381666003885 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 381666003886 putative active site [active] 381666003887 putative metal binding site [ion binding]; other site 381666003888 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 381666003889 RDD family; Region: RDD; cl00746 381666003890 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 381666003891 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 381666003892 RNA polymerase factor sigma-70; Validated; Region: PRK09047 381666003893 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666003894 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 381666003895 DNA binding residues [nucleotide binding] 381666003896 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 381666003897 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666003898 PYR/PP interface [polypeptide binding]; other site 381666003899 dimer interface [polypeptide binding]; other site 381666003900 TPP binding site [chemical binding]; other site 381666003901 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 381666003902 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 381666003903 TPP-binding site [chemical binding]; other site 381666003904 dimer interface [polypeptide binding]; other site 381666003905 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 381666003906 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 381666003907 putative valine binding site [chemical binding]; other site 381666003908 dimer interface [polypeptide binding]; other site 381666003909 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 381666003910 ketol-acid reductoisomerase; Provisional; Region: PRK05479 381666003911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666003912 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 381666003913 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 381666003914 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 381666003915 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 381666003916 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 381666003917 BON domain; Region: BON; cl02771 381666003918 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 381666003919 2-isopropylmalate synthase; Validated; Region: PRK00915 381666003920 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 381666003921 active site 381666003922 catalytic residues [active] 381666003923 metal binding site [ion binding]; metal-binding site 381666003924 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 381666003925 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666003926 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 381666003927 putative ligand binding site [chemical binding]; other site 381666003928 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 381666003929 16S/18S rRNA binding site [nucleotide binding]; other site 381666003930 S13e-L30e interaction site [polypeptide binding]; other site 381666003931 25S rRNA binding site [nucleotide binding]; other site 381666003932 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 381666003933 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 381666003934 RNase E interface [polypeptide binding]; other site 381666003935 trimer interface [polypeptide binding]; other site 381666003936 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 381666003937 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 381666003938 RNase E interface [polypeptide binding]; other site 381666003939 trimer interface [polypeptide binding]; other site 381666003940 active site 381666003941 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 381666003942 putative nucleic acid binding region [nucleotide binding]; other site 381666003943 G-X-X-G motif; other site 381666003944 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 381666003945 RNA binding site [nucleotide binding]; other site 381666003946 domain interface; other site 381666003947 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 381666003948 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 381666003949 NAD(P) binding site [chemical binding]; other site 381666003950 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 381666003951 substrate binding site [chemical binding]; other site 381666003952 dimer interface [polypeptide binding]; other site 381666003953 catalytic triad [active] 381666003954 Preprotein translocase SecG subunit; Region: SecG; cl09123 381666003955 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 381666003956 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 381666003957 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 381666003958 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 381666003959 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 381666003960 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 381666003961 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 381666003962 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 381666003963 putative dimer interface [polypeptide binding]; other site 381666003964 [2Fe-2S] cluster binding site [ion binding]; other site 381666003965 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 381666003966 SLBB domain; Region: SLBB; pfam10531 381666003967 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 381666003968 NADH dehydrogenase subunit G; Validated; Region: PRK09129 381666003969 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 381666003970 catalytic loop [active] 381666003971 iron binding site [ion binding]; other site 381666003972 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 381666003973 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 381666003974 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 381666003975 NADH dehydrogenase; Region: NADHdh; cl00469 381666003976 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 381666003977 4Fe-4S binding domain; Region: Fer4; cl02805 381666003978 4Fe-4S binding domain; Region: Fer4; cl02805 381666003979 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 381666003980 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 381666003981 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 381666003982 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 381666003983 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 381666003984 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 381666003985 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 381666003986 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 381666003987 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 381666003988 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 381666003989 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 381666003990 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 381666003991 dimer interface [polypeptide binding]; other site 381666003992 ADP-ribose binding site [chemical binding]; other site 381666003993 active site 381666003994 nudix motif; other site 381666003995 metal binding site [ion binding]; metal-binding site 381666003996 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 381666003997 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 381666003998 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666003999 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666004000 active site 381666004001 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666004002 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666004003 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666004004 active site 381666004005 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 381666004006 putative active site [active] 381666004007 putative catalytic site [active] 381666004008 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 381666004009 putative active site [active] 381666004010 putative catalytic site [active] 381666004011 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 381666004012 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 381666004013 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 381666004014 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 381666004015 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 381666004016 D-pathway; other site 381666004017 Putative ubiquinol binding site [chemical binding]; other site 381666004018 Low-spin heme (heme b) binding site [chemical binding]; other site 381666004019 Putative water exit pathway; other site 381666004020 Binuclear center (heme o3/CuB) [ion binding]; other site 381666004021 K-pathway; other site 381666004022 Putative proton exit pathway; other site 381666004023 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 381666004024 Subunit I/III interface [polypeptide binding]; other site 381666004025 Subunit III/IV interface [polypeptide binding]; other site 381666004026 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 381666004027 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666004028 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 381666004029 putative ligand binding site [chemical binding]; other site 381666004030 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 381666004031 TM-ABC transporter signature motif; other site 381666004032 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 381666004033 TM-ABC transporter signature motif; other site 381666004034 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 381666004035 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 381666004036 Walker A/P-loop; other site 381666004037 ATP binding site [chemical binding]; other site 381666004038 Q-loop/lid; other site 381666004039 ABC transporter signature motif; other site 381666004040 Walker B; other site 381666004041 D-loop; other site 381666004042 H-loop/switch region; other site 381666004043 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 381666004044 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 381666004045 Walker A/P-loop; other site 381666004046 ATP binding site [chemical binding]; other site 381666004047 Q-loop/lid; other site 381666004048 ABC transporter signature motif; other site 381666004049 Walker B; other site 381666004050 D-loop; other site 381666004051 H-loop/switch region; other site 381666004052 UreD urease accessory protein; Region: UreD; cl00530 381666004053 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 381666004054 alpha-gamma subunit interface [polypeptide binding]; other site 381666004055 beta-gamma subunit interface [polypeptide binding]; other site 381666004056 HupE / UreJ protein; Region: HupE_UreJ; cl01011 381666004057 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 381666004058 gamma-beta subunit interface [polypeptide binding]; other site 381666004059 alpha-beta subunit interface [polypeptide binding]; other site 381666004060 urease subunit alpha; Reviewed; Region: ureC; PRK13207 381666004061 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 381666004062 subunit interactions [polypeptide binding]; other site 381666004063 active site 381666004064 flap region; other site 381666004065 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 381666004066 dimer interface [polypeptide binding]; other site 381666004067 catalytic residues [active] 381666004068 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 381666004069 UreF; Region: UreF; pfam01730 381666004070 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666004071 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 381666004072 non-specific DNA binding site [nucleotide binding]; other site 381666004073 salt bridge; other site 381666004074 sequence-specific DNA binding site [nucleotide binding]; other site 381666004075 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 381666004076 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 381666004077 C-terminal domain interface [polypeptide binding]; other site 381666004078 GSH binding site (G-site) [chemical binding]; other site 381666004079 dimer interface [polypeptide binding]; other site 381666004080 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 381666004081 N-terminal domain interface [polypeptide binding]; other site 381666004082 putative dimer interface [polypeptide binding]; other site 381666004083 active site 381666004084 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666004085 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 381666004086 FAD binding site [chemical binding]; other site 381666004087 substrate binding site [chemical binding]; other site 381666004088 catalytic base [active] 381666004089 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 381666004090 Helix-turn-helix domains; Region: HTH; cl00088 381666004091 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 381666004092 substrate binding pocket [chemical binding]; other site 381666004093 dimerization interface [polypeptide binding]; other site 381666004094 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 381666004095 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 381666004096 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666004097 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 381666004098 DNA binding residues [nucleotide binding] 381666004099 von Willebrand factor; Region: vWF_A; pfam12450 381666004100 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 381666004101 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 381666004102 metal ion-dependent adhesion site (MIDAS); other site 381666004103 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 381666004104 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 381666004105 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 381666004106 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 381666004107 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 381666004108 putative active site [active] 381666004109 putative substrate binding site [chemical binding]; other site 381666004110 ATP binding site [chemical binding]; other site 381666004111 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 381666004112 catalytic core [active] 381666004113 enoyl-CoA hydratase; Provisional; Region: PRK07511 381666004114 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 381666004115 substrate binding site [chemical binding]; other site 381666004116 oxyanion hole (OAH) forming residues; other site 381666004117 trimer interface [polypeptide binding]; other site 381666004118 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 381666004119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666004120 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666004121 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666004122 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666004123 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 381666004124 C-terminal domain interface [polypeptide binding]; other site 381666004125 GSH binding site (G-site) [chemical binding]; other site 381666004126 dimer interface [polypeptide binding]; other site 381666004127 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 381666004128 putative N-terminal domain interface [polypeptide binding]; other site 381666004129 putative dimer interface [polypeptide binding]; other site 381666004130 putative substrate binding pocket (H-site) [chemical binding]; other site 381666004131 methionine aminotransferase; Validated; Region: PRK09082 381666004132 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 381666004133 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666004134 homodimer interface [polypeptide binding]; other site 381666004135 catalytic residue [active] 381666004136 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 381666004137 Protein of unknown function (DUF328); Region: DUF328; cl01143 381666004138 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 381666004139 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 381666004140 putative active site [active] 381666004141 Zn binding site [ion binding]; other site 381666004142 N-formylglutamate amidohydrolase; Region: FGase; cl01522 381666004143 NMT1-like family; Region: NMT1_2; cl15260 381666004144 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666004145 Helix-turn-helix domains; Region: HTH; cl00088 381666004146 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 381666004147 dimerization interface [polypeptide binding]; other site 381666004148 substrate binding pocket [chemical binding]; other site 381666004149 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666004150 Helix-turn-helix domains; Region: HTH; cl00088 381666004151 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 381666004152 putative dimerization interface [polypeptide binding]; other site 381666004153 benzoylformate decarboxylase; Reviewed; Region: PRK07092 381666004154 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666004155 PYR/PP interface [polypeptide binding]; other site 381666004156 dimer interface [polypeptide binding]; other site 381666004157 TPP binding site [chemical binding]; other site 381666004158 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 381666004159 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 381666004160 TPP-binding site [chemical binding]; other site 381666004161 dimer interface [polypeptide binding]; other site 381666004162 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 381666004163 NAD(P) binding site [chemical binding]; other site 381666004164 catalytic residues [active] 381666004165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666004166 NMT1-like family; Region: NMT1_2; cl15260 381666004167 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 381666004168 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 381666004169 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 381666004170 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 381666004171 Walker A motif; other site 381666004172 ATP binding site [chemical binding]; other site 381666004173 Walker B motif; other site 381666004174 arginine finger; other site 381666004175 Cytochrome c; Region: Cytochrom_C; cl11414 381666004176 Cytochrome c; Region: Cytochrom_C; cl11414 381666004177 NeuB family; Region: NeuB; cl00496 381666004178 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 381666004179 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 381666004180 S-adenosylmethionine binding site [chemical binding]; other site 381666004181 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 381666004182 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 381666004183 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 381666004184 putative active site [active] 381666004185 catalytic triad [active] 381666004186 dimer interface [polypeptide binding]; other site 381666004187 Predicted membrane protein [Function unknown]; Region: COG3164 381666004188 AsmA-like C-terminal region; Region: AsmA_2; cl15864 381666004189 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 381666004190 metal binding triad; other site 381666004191 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 381666004192 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 381666004193 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 381666004194 metal binding triad; other site 381666004195 Rhomboid family; Region: Rhomboid; cl11446 381666004196 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 381666004197 active site 381666004198 catalytic triad [active] 381666004199 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 381666004200 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 381666004201 Walker A/P-loop; other site 381666004202 ATP binding site [chemical binding]; other site 381666004203 Q-loop/lid; other site 381666004204 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 381666004205 ABC transporter signature motif; other site 381666004206 Walker B; other site 381666004207 D-loop; other site 381666004208 H-loop/switch region; other site 381666004209 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 381666004210 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 381666004211 Helix-turn-helix domains; Region: HTH; cl00088 381666004212 ferrochelatase; Reviewed; Region: hemH; PRK00035 381666004213 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 381666004214 C-terminal domain interface [polypeptide binding]; other site 381666004215 active site 381666004216 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 381666004217 active site 381666004218 N-terminal domain interface [polypeptide binding]; other site 381666004219 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 381666004220 RNA binding surface [nucleotide binding]; other site 381666004221 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 381666004222 dimer interface [polypeptide binding]; other site 381666004223 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 381666004224 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 381666004225 catalytic residues [active] 381666004226 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 381666004227 substrate binding site [chemical binding]; other site 381666004228 dimerization interface [polypeptide binding]; other site 381666004229 active site 381666004230 calcium binding site [ion binding]; other site 381666004231 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 381666004232 EamA-like transporter family; Region: EamA; cl01037 381666004233 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 381666004234 putative FMN binding site [chemical binding]; other site 381666004235 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 381666004236 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666004237 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 381666004238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666004239 Helix-turn-helix domains; Region: HTH; cl00088 381666004240 endonuclease III; Provisional; Region: PRK10702 381666004241 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 381666004242 minor groove reading motif; other site 381666004243 helix-hairpin-helix signature motif; other site 381666004244 substrate binding pocket [chemical binding]; other site 381666004245 active site 381666004246 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 381666004247 ferredoxin; Provisional; Region: PRK06991 381666004248 Putative Fe-S cluster; Region: FeS; pfam04060 381666004249 4Fe-4S binding domain; Region: Fer4; cl02805 381666004250 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 381666004251 Helix-turn-helix domains; Region: HTH; cl00088 381666004252 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 381666004253 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 381666004254 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 381666004255 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 381666004256 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666004257 homodimer interface [polypeptide binding]; other site 381666004258 catalytic residue [active] 381666004259 excinuclease ABC subunit B; Provisional; Region: PRK05298 381666004260 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 381666004261 ATP binding site [chemical binding]; other site 381666004262 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 381666004263 nucleotide binding region [chemical binding]; other site 381666004264 ATP-binding site [chemical binding]; other site 381666004265 Ultra-violet resistance protein B; Region: UvrB; pfam12344 381666004266 UvrB/uvrC motif; Region: UVR; pfam02151 381666004267 Low molecular weight phosphatase family; Region: LMWPc; cd00115 381666004268 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 381666004269 active site 381666004270 Site-specific recombinase; Region: SpecificRecomb; cl15411 381666004271 Helix-turn-helix domains; Region: HTH; cl00088 381666004272 Rrf2 family protein; Region: rrf2_super; TIGR00738 381666004273 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 381666004274 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 381666004275 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666004276 catalytic residue [active] 381666004277 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 381666004278 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 381666004279 trimerization site [polypeptide binding]; other site 381666004280 active site 381666004281 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 381666004282 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 381666004283 co-chaperone HscB; Provisional; Region: hscB; PRK03578 381666004284 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 381666004285 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 381666004286 chaperone protein HscA; Provisional; Region: hscA; PRK05183 381666004287 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 381666004288 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 381666004289 catalytic loop [active] 381666004290 iron binding site [ion binding]; other site 381666004291 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 381666004292 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 381666004293 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 381666004294 dimer interface [polypeptide binding]; other site 381666004295 putative anticodon binding site; other site 381666004296 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 381666004297 motif 1; other site 381666004298 active site 381666004299 motif 2; other site 381666004300 motif 3; other site 381666004301 short chain dehydrogenase; Provisional; Region: PRK07023 381666004302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666004303 NAD(P) binding site [chemical binding]; other site 381666004304 active site 381666004305 peptide chain release factor 2; Validated; Region: prfB; PRK00578 381666004306 RF-1 domain; Region: RF-1; cl02875 381666004307 RF-1 domain; Region: RF-1; cl02875 381666004308 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 381666004309 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 381666004310 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 381666004311 DHH family; Region: DHH; pfam01368 381666004312 DHHA1 domain; Region: DHHA1; pfam02272 381666004313 Sulfatase; Region: Sulfatase; cl10460 381666004314 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 381666004315 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 381666004316 FtsX-like permease family; Region: FtsX; cl15850 381666004317 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 381666004318 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 381666004319 Walker A/P-loop; other site 381666004320 ATP binding site [chemical binding]; other site 381666004321 Q-loop/lid; other site 381666004322 ABC transporter signature motif; other site 381666004323 Walker B; other site 381666004324 D-loop; other site 381666004325 H-loop/switch region; other site 381666004326 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 381666004327 active site 381666004328 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 381666004329 Competence protein; Region: Competence; cl00471 381666004330 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666004331 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 381666004332 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 381666004333 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 381666004334 putative active site [active] 381666004335 Dehydratase family; Region: ILVD_EDD; cl00340 381666004336 6-phosphogluconate dehydratase; Region: edd; TIGR01196 381666004337 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 381666004338 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 381666004339 ATP-binding site [chemical binding]; other site 381666004340 Gluconate-6-phosphate binding site [chemical binding]; other site 381666004341 Uncharacterized conserved protein [Function unknown]; Region: COG2308 381666004342 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 381666004343 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 381666004344 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 381666004345 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 381666004346 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 381666004347 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 381666004348 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 381666004349 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666004350 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 becoming...; Region: Lipase; cl14883 381666004351 CTP synthetase; Validated; Region: pyrG; PRK05380 381666004352 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 381666004353 Catalytic site [active] 381666004354 active site 381666004355 UTP binding site [chemical binding]; other site 381666004356 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 381666004357 active site 381666004358 putative oxyanion hole; other site 381666004359 catalytic triad [active] 381666004360 NeuB family; Region: NeuB; cl00496 381666004361 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 381666004362 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 381666004363 enolase; Provisional; Region: eno; PRK00077 381666004364 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 381666004365 dimer interface [polypeptide binding]; other site 381666004366 metal binding site [ion binding]; metal-binding site 381666004367 substrate binding pocket [chemical binding]; other site 381666004368 Septum formation initiator; Region: DivIC; cl11433 381666004369 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 381666004370 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 381666004371 dimerization interface [polypeptide binding]; other site 381666004372 domain crossover interface; other site 381666004373 redox-dependent activation switch; other site 381666004374 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 381666004375 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 381666004376 trimer interface [polypeptide binding]; other site 381666004377 putative metal binding site [ion binding]; other site 381666004378 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 381666004379 dinuclear metal binding motif [ion binding]; other site 381666004380 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 381666004381 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 381666004382 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666004383 LysR family transcriptional regulator; Provisional; Region: PRK14997 381666004384 Helix-turn-helix domains; Region: HTH; cl00088 381666004385 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 381666004386 putative dimerization interface [polypeptide binding]; other site 381666004387 putative effector binding pocket; other site 381666004388 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 381666004389 AMP-binding enzyme; Region: AMP-binding; cl15778 381666004390 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666004391 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666004392 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 becoming...; Region: Lipase; cl14883 381666004393 nucleophilic elbow; other site 381666004394 catalytic triad; other site 381666004395 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 381666004396 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666004397 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666004398 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 381666004399 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 381666004400 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 381666004401 active site 381666004402 putative substrate binding region [chemical binding]; other site 381666004403 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 381666004404 S-adenosylmethionine binding site [chemical binding]; other site 381666004405 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 381666004406 dihydrodipicolinate synthase; Region: dapA; TIGR00674 381666004407 dimer interface [polypeptide binding]; other site 381666004408 active site 381666004409 catalytic residue [active] 381666004410 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 381666004411 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 381666004412 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666004413 Uncharacterized conserved protein [Function unknown]; Region: COG2850 381666004414 JmjC domain, hydroxylase; Region: JmjC; cl15814 381666004415 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 381666004416 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 381666004417 MutS domain I; Region: MutS_I; pfam01624 381666004418 MutS domain II; Region: MutS_II; pfam05188 381666004419 MutS family domain IV; Region: MutS_IV; pfam05190 381666004420 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 381666004421 Walker A/P-loop; other site 381666004422 ATP binding site [chemical binding]; other site 381666004423 Q-loop/lid; other site 381666004424 ABC transporter signature motif; other site 381666004425 Walker B; other site 381666004426 D-loop; other site 381666004427 H-loop/switch region; other site 381666004428 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 381666004429 Ligand Binding Site [chemical binding]; other site 381666004430 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 381666004431 Protein of unknown function (DUF465); Region: DUF465; cl01070 381666004432 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 381666004433 active site 381666004434 dimerization interface [polypeptide binding]; other site 381666004435 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 381666004436 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 381666004437 serine O-acetyltransferase; Region: cysE; TIGR01172 381666004438 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 381666004439 trimer interface [polypeptide binding]; other site 381666004440 active site 381666004441 substrate binding site [chemical binding]; other site 381666004442 CoA binding site [chemical binding]; other site 381666004443 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 381666004444 putative active site [active] 381666004445 putative metal binding site [ion binding]; other site 381666004446 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 381666004447 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 381666004448 substrate binding site [chemical binding]; other site 381666004449 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 381666004450 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 381666004451 substrate binding site [chemical binding]; other site 381666004452 Tetratricopeptide repeat; Region: TPR_16; pfam13432 381666004453 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 381666004454 TPR motif; other site 381666004455 binding surface 381666004456 TPR repeat; Region: TPR_11; pfam13414 381666004457 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 381666004458 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 381666004459 active site 381666004460 HIGH motif; other site 381666004461 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 381666004462 KMSKS motif; other site 381666004463 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 381666004464 tRNA binding surface [nucleotide binding]; other site 381666004465 anticodon binding site; other site 381666004466 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 381666004467 endonuclease III; Region: ENDO3c; smart00478 381666004468 minor groove reading motif; other site 381666004469 helix-hairpin-helix signature motif; other site 381666004470 substrate binding pocket [chemical binding]; other site 381666004471 active site 381666004472 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 381666004473 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 381666004474 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 381666004475 Ligand Binding Site [chemical binding]; other site 381666004476 TilS substrate binding domain; Region: TilS; pfam09179 381666004477 B3/4 domain; Region: B3_4; cl11458 381666004478 aspartate kinase; Reviewed; Region: PRK06635 381666004479 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 381666004480 putative nucleotide binding site [chemical binding]; other site 381666004481 putative catalytic residues [active] 381666004482 putative Mg ion binding site [ion binding]; other site 381666004483 putative aspartate binding site [chemical binding]; other site 381666004484 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 381666004485 putative allosteric regulatory site; other site 381666004486 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 381666004487 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666004488 Helix-turn-helix domains; Region: HTH; cl00088 381666004489 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 381666004490 active site 381666004491 oxalacetate binding site [chemical binding]; other site 381666004492 citrylCoA binding site [chemical binding]; other site 381666004493 coenzyme A binding site [chemical binding]; other site 381666004494 catalytic triad [active] 381666004495 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 381666004496 AMP-binding enzyme; Region: AMP-binding; cl15778 381666004497 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 381666004498 active site 381666004499 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 381666004500 Helix-turn-helix domains; Region: HTH; cl00088 381666004501 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666004502 Helix-turn-helix domains; Region: HTH; cl00088 381666004503 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 381666004504 putative dimerization interface [polypeptide binding]; other site 381666004505 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666004506 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666004507 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 381666004508 active site 381666004509 catalytic residues [active] 381666004510 metal binding site [ion binding]; metal-binding site 381666004511 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 381666004512 substrate binding site [chemical binding]; other site 381666004513 ligand binding site [chemical binding]; other site 381666004514 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 381666004515 substrate binding site [chemical binding]; other site 381666004516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666004517 NMT1-like family; Region: NMT1_2; cl15260 381666004518 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 381666004519 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 381666004520 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 381666004521 TM-ABC transporter signature motif; other site 381666004522 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 381666004523 TM-ABC transporter signature motif; other site 381666004524 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 381666004525 Probable transposase; Region: OrfB_IS605; pfam01385 381666004526 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 381666004527 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666004528 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 381666004529 Walker A/P-loop; other site 381666004530 ATP binding site [chemical binding]; other site 381666004531 Q-loop/lid; other site 381666004532 ABC transporter signature motif; other site 381666004533 Walker B; other site 381666004534 D-loop; other site 381666004535 H-loop/switch region; other site 381666004536 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666004537 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 381666004538 Walker A/P-loop; other site 381666004539 ATP binding site [chemical binding]; other site 381666004540 Q-loop/lid; other site 381666004541 ABC transporter signature motif; other site 381666004542 Walker B; other site 381666004543 D-loop; other site 381666004544 H-loop/switch region; other site 381666004545 YCII-related domain; Region: YCII; cl00999 381666004546 CHASE domain; Region: CHASE; cl01369 381666004547 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 381666004548 putative active site [active] 381666004549 heme pocket [chemical binding]; other site 381666004550 GAF domain; Region: GAF_2; pfam13185 381666004551 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666004552 metal binding site [ion binding]; metal-binding site 381666004553 active site 381666004554 I-site; other site 381666004555 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 381666004556 Uncharacterized conserved protein [Function unknown]; Region: COG4278 381666004557 pyruvate carboxylase; Reviewed; Region: PRK12999 381666004558 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666004559 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666004560 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 381666004561 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 381666004562 active site 381666004563 catalytic residues [active] 381666004564 metal binding site [ion binding]; metal-binding site 381666004565 homodimer binding site [polypeptide binding]; other site 381666004566 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 381666004567 carboxyltransferase (CT) interaction site; other site 381666004568 biotinylation site [posttranslational modification]; other site 381666004569 high affinity sulphate transporter 1; Region: sulP; TIGR00815 381666004570 Sulfate transporter family; Region: Sulfate_transp; cl15842 381666004571 Sulfate transporter family; Region: Sulfate_transp; cl15842 381666004572 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 381666004573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666004574 NMT1-like family; Region: NMT1_2; cl15260 381666004575 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13029 381666004576 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 381666004577 dimer interface [polypeptide binding]; other site 381666004578 PYR/PP interface [polypeptide binding]; other site 381666004579 TPP binding site [chemical binding]; other site 381666004580 substrate binding site [chemical binding]; other site 381666004581 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 381666004582 TPP-binding site [chemical binding]; other site 381666004583 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 381666004584 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 381666004585 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666004586 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666004587 DNA-binding site [nucleotide binding]; DNA binding site 381666004588 UTRA domain; Region: UTRA; cl01230 381666004589 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 381666004590 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 381666004591 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 381666004592 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 381666004593 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 381666004594 NAD(P) binding site [chemical binding]; other site 381666004595 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666004596 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 381666004597 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 381666004598 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 381666004599 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 381666004600 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 381666004601 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 381666004602 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 381666004603 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666004604 classical (c) SDRs; Region: SDR_c; cd05233 381666004605 NAD(P) binding site [chemical binding]; other site 381666004606 active site 381666004607 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 381666004608 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 381666004609 putative active site [active] 381666004610 putative substrate binding site [chemical binding]; other site 381666004611 ATP binding site [chemical binding]; other site 381666004612 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 381666004613 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 381666004614 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 381666004615 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 381666004616 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 381666004617 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 381666004618 cyclase homology domain; Region: CHD; cd07302 381666004619 nucleotidyl binding site; other site 381666004620 metal binding site [ion binding]; metal-binding site 381666004621 dimer interface [polypeptide binding]; other site 381666004622 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666004623 Tetratricopeptide repeat; Region: TPR_12; pfam13424 381666004624 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 381666004625 binding surface 381666004626 TPR motif; other site 381666004627 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 381666004628 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 381666004629 catalytic residues [active] 381666004630 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 381666004631 active site 381666004632 zinc binding site [ion binding]; other site 381666004633 GYD domain; Region: GYD; cl01743 381666004634 Predicted GTPase [General function prediction only]; Region: DRG; COG1163 381666004635 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666004636 G1 box; other site 381666004637 GTP/Mg2+ binding site [chemical binding]; other site 381666004638 G2 box; other site 381666004639 Switch I region; other site 381666004640 G3 box; other site 381666004641 Switch II region; other site 381666004642 G4 box; other site 381666004643 G5 box; other site 381666004644 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 381666004645 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 381666004646 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 381666004647 Pirin-related protein [General function prediction only]; Region: COG1741 381666004648 Cupin domain; Region: Cupin_2; cl09118 381666004649 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 381666004650 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 381666004651 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666004652 NAD(P) binding site [chemical binding]; other site 381666004653 active site 381666004654 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 381666004655 active site 381666004656 catalytic site [active] 381666004657 (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 381666004658 active site 381666004659 catalytic site [active] 381666004660 lipid-transfer protein; Provisional; Region: PRK08256 381666004661 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 381666004662 active site 381666004663 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666004664 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666004665 active site 381666004666 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 381666004667 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 381666004668 DNA binding residues [nucleotide binding] 381666004669 dimerization interface [polypeptide binding]; other site 381666004670 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666004671 NMT1-like family; Region: NMT1_2; cl15260 381666004672 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666004673 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 381666004674 AMP-binding enzyme; Region: AMP-binding; cl15778 381666004675 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666004676 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 381666004677 DUF35 OB-fold domain; Region: DUF35; pfam01796 381666004678 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 381666004679 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 381666004680 active site 381666004681 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666004682 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666004683 DNA-binding site [nucleotide binding]; DNA binding site 381666004684 UTRA domain; Region: UTRA; cl01230 381666004685 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666004686 Helix-turn-helix domains; Region: HTH; cl00088 381666004687 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666004688 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 381666004689 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 381666004690 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 381666004691 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 381666004692 dimer interface [polypeptide binding]; other site 381666004693 conserved gate region; other site 381666004694 putative PBP binding loops; other site 381666004695 ABC-ATPase subunit interface; other site 381666004696 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 381666004697 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 381666004698 putative PBP binding loops; other site 381666004699 dimer interface [polypeptide binding]; other site 381666004700 ABC-ATPase subunit interface; other site 381666004701 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 381666004702 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666004703 Walker A/P-loop; other site 381666004704 ATP binding site [chemical binding]; other site 381666004705 Q-loop/lid; other site 381666004706 ABC transporter signature motif; other site 381666004707 Walker B; other site 381666004708 D-loop; other site 381666004709 H-loop/switch region; other site 381666004710 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666004711 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 381666004712 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666004713 Walker A/P-loop; other site 381666004714 ATP binding site [chemical binding]; other site 381666004715 Q-loop/lid; other site 381666004716 ABC transporter signature motif; other site 381666004717 Walker B; other site 381666004718 D-loop; other site 381666004719 H-loop/switch region; other site 381666004720 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666004721 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 381666004722 trimer interface [polypeptide binding]; other site 381666004723 eyelet of channel; other site 381666004724 N-formylglutamate amidohydrolase; Region: FGase; cl01522 381666004725 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666004726 FAD binding domain; Region: FAD_binding_4; pfam01565 381666004727 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 381666004728 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 381666004729 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 381666004730 Protein of unknown function (DUF962); Region: DUF962; cl01879 381666004731 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666004732 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; cl12031 381666004733 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; cl12031 381666004734 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 381666004735 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 381666004736 homodimer interface [polypeptide binding]; other site 381666004737 substrate-cofactor binding pocket; other site 381666004738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666004739 catalytic residue [active] 381666004740 FOG: CBS domain [General function prediction only]; Region: COG0517 381666004741 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 381666004742 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666004743 putative substrate translocation pore; other site 381666004744 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 381666004745 putative acyl-acceptor binding pocket; other site 381666004746 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 381666004747 putative C-terminal domain interface [polypeptide binding]; other site 381666004748 putative GSH binding site [chemical binding]; other site 381666004749 putative dimer interface [polypeptide binding]; other site 381666004750 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 381666004751 putative N-terminal domain interface [polypeptide binding]; other site 381666004752 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 381666004753 Tetramer interface [polypeptide binding]; other site 381666004754 active site 381666004755 FMN-binding site [chemical binding]; other site 381666004756 MFS_1 like family; Region: MFS_1_like; pfam12832 381666004757 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 381666004758 Predicted dehydrogenase [General function prediction only]; Region: COG0579 381666004759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666004760 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666004761 DNA-binding site [nucleotide binding]; DNA binding site 381666004762 FCD domain; Region: FCD; cl11656 381666004763 Flagellar protein YcgR; Region: YcgR_2; pfam12945 381666004764 PilZ domain; Region: PilZ; cl01260 381666004765 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 381666004766 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; cl12031 381666004767 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 381666004768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666004769 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 381666004770 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 381666004771 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 381666004772 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 381666004773 classical (c) SDRs; Region: SDR_c; cd05233 381666004774 NAD(P) binding site [chemical binding]; other site 381666004775 active site 381666004776 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 381666004777 DctM-like transporters; Region: DctM; pfam06808 381666004778 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 381666004779 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 381666004780 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 381666004781 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 381666004782 active site 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; cl02459 381666004784 PAS domain; Region: PAS_9; pfam13426 381666004785 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 381666004786 DNA binding residues [nucleotide binding] 381666004787 dimerization interface [polypeptide binding]; other site 381666004788 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 381666004789 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 381666004790 Protein of unknown function, DUF; Region: DUF411; cl01142 381666004791 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 381666004792 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 381666004793 NAD binding site [chemical binding]; other site 381666004794 homotetramer interface [polypeptide binding]; other site 381666004795 homodimer interface [polypeptide binding]; other site 381666004796 substrate binding site [chemical binding]; other site 381666004797 active site 381666004798 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; cl12031 381666004799 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666004800 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 381666004801 homotrimer interaction site [polypeptide binding]; other site 381666004802 putative active site [active] 381666004803 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 381666004804 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 381666004805 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 381666004806 synthetase active site [active] 381666004807 NTP binding site [chemical binding]; other site 381666004808 metal binding site [ion binding]; metal-binding site 381666004809 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 381666004810 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 381666004811 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 381666004812 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 381666004813 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 381666004814 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 381666004815 active site 381666004816 dimer interface [polypeptide binding]; other site 381666004817 motif 1; other site 381666004818 motif 2; other site 381666004819 motif 3; other site 381666004820 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 381666004821 anticodon binding site; other site 381666004822 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 381666004823 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 381666004824 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 381666004825 ribosomal protein L20; Region: rpl20; CHL00068 381666004826 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 381666004827 23S rRNA binding site [nucleotide binding]; other site 381666004828 L21 binding site [polypeptide binding]; other site 381666004829 L13 binding site [polypeptide binding]; other site 381666004830 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 381666004831 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 381666004832 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 381666004833 dimer interface [polypeptide binding]; other site 381666004834 motif 1; other site 381666004835 active site 381666004836 motif 2; other site 381666004837 motif 3; other site 381666004838 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 381666004839 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 381666004840 putative tRNA-binding site [nucleotide binding]; other site 381666004841 B3/4 domain; Region: B3_4; cl11458 381666004842 tRNA synthetase B5 domain; Region: B5; cl08394 381666004843 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 381666004844 dimer interface [polypeptide binding]; other site 381666004845 motif 1; other site 381666004846 motif 3; other site 381666004847 motif 2; other site 381666004848 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 381666004849 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 381666004850 IHF - DNA interface [nucleotide binding]; other site 381666004851 IHF dimer interface [polypeptide binding]; other site 381666004852 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 381666004853 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 381666004854 DNA binding residues [nucleotide binding] 381666004855 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 381666004856 Protein of unknown function (DUF497); Region: DUF497; cl01108 381666004857 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 381666004858 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 381666004859 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 381666004860 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 381666004861 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 381666004862 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666004863 NMT1-like family; Region: NMT1_2; cl15260 381666004864 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 381666004865 Helix-turn-helix domains; Region: HTH; cl00088 381666004866 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 381666004867 dimerization interface [polypeptide binding]; other site 381666004868 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 381666004869 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 381666004870 active site 381666004871 putative substrate binding pocket [chemical binding]; other site 381666004872 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 381666004873 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 381666004874 Sulfate transporter family; Region: Sulfate_transp; cl15842 381666004875 Sulfate transporter family; Region: Sulfate_transp; cl15842 381666004876 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 381666004877 Helix-turn-helix domains; Region: HTH; cl00088 381666004878 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666004879 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 381666004880 putative catalytic site [active] 381666004881 putative phosphate binding site [ion binding]; other site 381666004882 active site 381666004883 metal binding site A [ion binding]; metal-binding site 381666004884 DNA binding site [nucleotide binding] 381666004885 putative AP binding site [nucleotide binding]; other site 381666004886 putative metal binding site B [ion binding]; other site 381666004887 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 381666004888 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 381666004889 active site 381666004890 Zn binding site [ion binding]; other site 381666004891 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 381666004892 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 381666004893 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 381666004894 homodimer interface [polypeptide binding]; other site 381666004895 NADP binding site [chemical binding]; other site 381666004896 substrate binding site [chemical binding]; other site 381666004897 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 381666004898 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 381666004899 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666004900 active site 381666004901 phosphorylation site [posttranslational modification] 381666004902 intermolecular recognition site; other site 381666004903 dimerization interface [polypeptide binding]; other site 381666004904 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 381666004905 DNA binding residues [nucleotide binding] 381666004906 dimerization interface [polypeptide binding]; other site 381666004907 PAS domain S-box; Region: sensory_box; TIGR00229 381666004908 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 381666004909 putative active site [active] 381666004910 heme pocket [chemical binding]; other site 381666004911 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 381666004912 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 381666004913 dimer interface [polypeptide binding]; other site 381666004914 phosphorylation site [posttranslational modification] 381666004915 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 381666004916 ATP binding site [chemical binding]; other site 381666004917 Mg2+ binding site [ion binding]; other site 381666004918 G-X-G motif; other site 381666004919 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 381666004920 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 381666004921 dimer interface [polypeptide binding]; other site 381666004922 TPP-binding site [chemical binding]; other site 381666004923 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 381666004924 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 381666004925 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 381666004926 E3 interaction surface; other site 381666004927 lipoyl attachment site [posttranslational modification]; other site 381666004928 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 381666004929 E3 interaction surface; other site 381666004930 lipoyl attachment site [posttranslational modification]; other site 381666004931 e3 binding domain; Region: E3_binding; pfam02817 381666004932 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 381666004933 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 381666004934 active site 381666004935 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 381666004936 E3 interaction surface; other site 381666004937 lipoyl attachment site [posttranslational modification]; other site 381666004938 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 381666004939 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666004940 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666004941 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 381666004942 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 381666004943 Ligand Binding Site [chemical binding]; other site 381666004944 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 381666004945 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 381666004946 FeS/SAM binding site; other site 381666004947 Phasin protein; Region: Phasin_2; cl11491 381666004948 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 381666004949 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 381666004950 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 381666004951 active site 381666004952 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 381666004953 putative FMN binding site [chemical binding]; other site 381666004954 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 381666004955 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666004956 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666004957 FAD binding domain; Region: FAD_binding_4; pfam01565 381666004958 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666004959 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666004960 DNA-binding site [nucleotide binding]; DNA binding site 381666004961 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666004962 Helix-turn-helix domains; Region: HTH; cl00088 381666004963 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666004964 Cysteine-rich domain; Region: CCG; pfam02754 381666004965 Cysteine-rich domain; Region: CCG; pfam02754 381666004966 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 381666004967 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 381666004968 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 381666004969 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 381666004970 F420-dependent oxidoreductase, G6PDH family; Region: F420_G6P_family; TIGR03557 381666004971 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 381666004972 Helix-turn-helix domains; Region: HTH; cl00088 381666004973 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 381666004974 putative dimerization interface [polypeptide binding]; other site 381666004975 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 381666004976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666004977 NMT1-like family; Region: NMT1_2; cl15260 381666004978 NMT1-like family; Region: NMT1_2; cl15260 381666004979 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 381666004980 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666004981 Walker A/P-loop; other site 381666004982 ATP binding site [chemical binding]; other site 381666004983 Q-loop/lid; other site 381666004984 ABC transporter signature motif; other site 381666004985 Walker B; other site 381666004986 D-loop; other site 381666004987 H-loop/switch region; other site 381666004988 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 381666004989 TM-ABC transporter signature motif; other site 381666004990 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 381666004991 zinc binding site [ion binding]; other site 381666004992 putative ligand binding site [chemical binding]; other site 381666004993 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 381666004994 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 381666004995 active site 381666004996 catalytic tetrad [active] 381666004997 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 381666004998 quinone interaction residues [chemical binding]; other site 381666004999 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 381666005000 active site 381666005001 catalytic residues [active] 381666005002 FMN binding site [chemical binding]; other site 381666005003 substrate binding site [chemical binding]; other site 381666005004 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 381666005005 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 381666005006 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666005007 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666005008 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 381666005009 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 381666005010 nudix motif; other site 381666005011 RES domain; Region: RES; cl02411 381666005012 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 381666005013 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 381666005014 4Fe-4S binding domain; Region: Fer4; cl02805 381666005015 4Fe-4S binding domain; Region: Fer4; cl02805 381666005016 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 381666005017 dimerization interface [polypeptide binding]; other site 381666005018 FAD binding pocket [chemical binding]; other site 381666005019 FAD binding motif [chemical binding]; other site 381666005020 catalytic residues [active] 381666005021 NAD binding pocket [chemical binding]; other site 381666005022 phosphate binding motif [ion binding]; other site 381666005023 beta-alpha-beta structure motif; other site 381666005024 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 381666005025 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 381666005026 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 381666005027 substrate binding site [chemical binding]; other site 381666005028 oxyanion hole (OAH) forming residues; other site 381666005029 trimer interface [polypeptide binding]; other site 381666005030 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 381666005031 non-specific DNA binding site [nucleotide binding]; other site 381666005032 salt bridge; other site 381666005033 sequence-specific DNA binding site [nucleotide binding]; other site 381666005034 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 381666005035 Shikimate kinase; Region: SKI; pfam01202 381666005036 ADP binding site [chemical binding]; other site 381666005037 magnesium binding site [ion binding]; other site 381666005038 putative shikimate binding site; other site 381666005039 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 381666005040 AMP-binding enzyme; Region: AMP-binding; cl15778 381666005041 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666005042 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666005043 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666005044 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 381666005045 putative ligand binding site [chemical binding]; other site 381666005046 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 381666005047 TM-ABC transporter signature motif; other site 381666005048 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 381666005049 TM-ABC transporter signature motif; other site 381666005050 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666005051 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 381666005052 Walker A/P-loop; other site 381666005053 ATP binding site [chemical binding]; other site 381666005054 Q-loop/lid; other site 381666005055 ABC transporter signature motif; other site 381666005056 Walker B; other site 381666005057 D-loop; other site 381666005058 H-loop/switch region; other site 381666005059 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666005060 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 381666005061 Walker A/P-loop; other site 381666005062 ATP binding site [chemical binding]; other site 381666005063 Q-loop/lid; other site 381666005064 ABC transporter signature motif; other site 381666005065 Walker B; other site 381666005066 D-loop; other site 381666005067 H-loop/switch region; other site 381666005068 K+ potassium transporter; Region: K_trans; cl15781 381666005069 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666005070 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 381666005071 DNA binding residues [nucleotide binding] 381666005072 dimerization interface [polypeptide binding]; other site 381666005073 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 381666005074 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 381666005075 putative dimer interface [polypeptide binding]; other site 381666005076 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 381666005077 putative dimer interface [polypeptide binding]; other site 381666005078 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 381666005079 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 381666005080 NAD binding site [chemical binding]; other site 381666005081 substrate binding site [chemical binding]; other site 381666005082 active site 381666005083 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 381666005084 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 381666005085 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666005086 active site 381666005087 phosphorylation site [posttranslational modification] 381666005088 intermolecular recognition site; other site 381666005089 dimerization interface [polypeptide binding]; other site 381666005090 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 381666005091 DNA binding site [nucleotide binding] 381666005092 sensor protein QseC; Provisional; Region: PRK10337 381666005093 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 381666005094 dimer interface [polypeptide binding]; other site 381666005095 phosphorylation site [posttranslational modification] 381666005096 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 381666005097 ATP binding site [chemical binding]; other site 381666005098 G-X-G motif; other site 381666005099 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 381666005100 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 381666005101 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 includes...; Region: RuvC_resolvase; cl00243 381666005102 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 381666005103 RNA binding site [nucleotide binding]; other site 381666005104 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 381666005105 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666005106 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666005107 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 381666005108 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 381666005109 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 381666005110 RNA binding surface [nucleotide binding]; other site 381666005111 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 381666005112 active site 381666005113 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 381666005114 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 381666005115 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 381666005116 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 381666005117 putative acyltransferase; Provisional; Region: PRK05790 381666005118 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 381666005119 dimer interface [polypeptide binding]; other site 381666005120 active site 381666005121 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 381666005122 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 381666005123 NAD(P) binding site [chemical binding]; other site 381666005124 homotetramer interface [polypeptide binding]; other site 381666005125 homodimer interface [polypeptide binding]; other site 381666005126 active site 381666005127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 381666005128 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 381666005129 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 381666005130 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 381666005131 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 381666005132 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 381666005133 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 381666005134 FMN binding site [chemical binding]; other site 381666005135 active site 381666005136 catalytic residues [active] 381666005137 substrate binding site [chemical binding]; other site 381666005138 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 381666005139 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 381666005140 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 381666005141 FeS/SAM binding site; other site 381666005142 beta-ketothiolase; Provisional; Region: PRK09051 381666005143 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 381666005144 dimer interface [polypeptide binding]; other site 381666005145 active site 381666005146 cystathionine beta-lyase; Provisional; Region: PRK07050 381666005147 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 381666005148 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666005149 catalytic residue [active] 381666005150 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 381666005151 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 381666005152 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 381666005153 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 381666005154 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 381666005155 phosphoserine phosphatase SerB; Region: serB; TIGR00338 381666005156 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 381666005157 motif II; other site 381666005158 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 381666005159 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 381666005160 metal binding site [ion binding]; metal-binding site 381666005161 putative dimer interface [polypeptide binding]; other site 381666005162 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 381666005163 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 381666005164 metal binding site [ion binding]; metal-binding site 381666005165 putative dimer interface [polypeptide binding]; other site 381666005166 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 381666005167 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 381666005168 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 381666005169 ATP binding site [chemical binding]; other site 381666005170 putative Mg++ binding site [ion binding]; other site 381666005171 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 381666005172 nucleotide binding region [chemical binding]; other site 381666005173 ATP-binding site [chemical binding]; other site 381666005174 TRCF domain; Region: TRCF; cl04088 381666005175 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 381666005176 substrate binding site; other site 381666005177 dimer interface; other site 381666005178 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 381666005179 homotrimer interaction site [polypeptide binding]; other site 381666005180 zinc binding site [ion binding]; other site 381666005181 CDP-binding sites; other site 381666005182 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666005183 Coenzyme A binding pocket [chemical binding]; other site 381666005184 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 381666005185 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666005186 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 381666005187 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 381666005188 dimer interface [polypeptide binding]; other site 381666005189 decamer (pentamer of dimers) interface [polypeptide binding]; other site 381666005190 catalytic triad [active] 381666005191 peroxidatic and resolving cysteines [active] 381666005192 citrate-proton symporter; Provisional; Region: PRK15075 381666005193 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666005194 putative substrate translocation pore; other site 381666005195 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 381666005196 dimerization interface [polypeptide binding]; other site 381666005197 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 381666005198 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 381666005199 ATP binding site [chemical binding]; other site 381666005200 Mg2+ binding site [ion binding]; other site 381666005201 G-X-G motif; other site 381666005202 osmolarity response regulator; Provisional; Region: ompR; PRK09468 381666005203 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666005204 active site 381666005205 phosphorylation site [posttranslational modification] 381666005206 intermolecular recognition site; other site 381666005207 dimerization interface [polypeptide binding]; other site 381666005208 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 381666005209 DNA binding site [nucleotide binding] 381666005210 allantoate amidohydrolase; Reviewed; Region: PRK12893 381666005211 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 381666005212 active site 381666005213 metal binding site [ion binding]; metal-binding site 381666005214 dimer interface [polypeptide binding]; other site 381666005215 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 381666005216 active site lid residues [active] 381666005217 substrate binding pocket [chemical binding]; other site 381666005218 catalytic residues [active] 381666005219 substrate-Mg2+ binding site; other site 381666005220 aspartate-rich region 1; other site 381666005221 aspartate-rich region 2; other site 381666005222 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666005223 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666005224 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666005225 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 381666005226 Amidase; Region: Amidase; cl11426 381666005227 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 381666005228 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666005229 Walker A/P-loop; other site 381666005230 ATP binding site [chemical binding]; other site 381666005231 Q-loop/lid; other site 381666005232 ABC transporter signature motif; other site 381666005233 Walker B; other site 381666005234 D-loop; other site 381666005235 H-loop/switch region; other site 381666005236 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666005237 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 381666005238 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666005239 Walker A/P-loop; other site 381666005240 ATP binding site [chemical binding]; other site 381666005241 Q-loop/lid; other site 381666005242 ABC transporter signature motif; other site 381666005243 Walker B; other site 381666005244 D-loop; other site 381666005245 H-loop/switch region; other site 381666005246 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666005247 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 381666005248 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 381666005249 dimer interface [polypeptide binding]; other site 381666005250 conserved gate region; other site 381666005251 putative PBP binding loops; other site 381666005252 ABC-ATPase subunit interface; other site 381666005253 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 381666005254 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 381666005255 dimer interface [polypeptide binding]; other site 381666005256 conserved gate region; other site 381666005257 putative PBP binding loops; other site 381666005258 ABC-ATPase subunit interface; other site 381666005259 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 381666005260 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 381666005261 allantoate amidohydrolase; Reviewed; Region: PRK12893 381666005262 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 381666005263 active site 381666005264 metal binding site [ion binding]; metal-binding site 381666005265 dimer interface [polypeptide binding]; other site 381666005266 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666005267 Helix-turn-helix domains; Region: HTH; cl00088 381666005268 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666005269 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 381666005270 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 381666005271 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; cl16911 381666005272 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666005273 trigger factor; Provisional; Region: tig; PRK01490 381666005274 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 381666005275 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 381666005276 Clp protease; Region: CLP_protease; pfam00574 381666005277 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 381666005278 oligomer interface [polypeptide binding]; other site 381666005279 active site residues [active] 381666005280 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 381666005281 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 381666005282 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 381666005283 Walker A motif; other site 381666005284 ATP binding site [chemical binding]; other site 381666005285 Walker B motif; other site 381666005286 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 381666005287 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 381666005288 Found in ATP-dependent protease La (LON); Region: LON; smart00464 381666005289 Found in ATP-dependent protease La (LON); Region: LON; smart00464 381666005290 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 381666005291 Walker A motif; other site 381666005292 ATP binding site [chemical binding]; other site 381666005293 Walker B motif; other site 381666005294 arginine finger; other site 381666005295 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 381666005296 Protein of unknown function (DUF421); Region: DUF421; cl00990 381666005297 Competence-damaged protein; Region: CinA; cl00666 381666005298 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 381666005299 active site 381666005300 DNA binding site [nucleotide binding] 381666005301 Int/Topo IB signature motif; other site 381666005302 catalytic residues [active] 381666005303 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666005304 classical (c) SDRs; Region: SDR_c; cd05233 381666005305 NAD(P) binding site [chemical binding]; other site 381666005306 active site 381666005307 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 381666005308 AMP-binding enzyme; Region: AMP-binding; cl15778 381666005309 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666005310 Helix-turn-helix domains; Region: HTH; cl00088 381666005311 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 381666005312 dimerization interface [polypeptide binding]; other site 381666005313 substrate binding pocket [chemical binding]; other site 381666005314 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 381666005315 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 381666005316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666005317 homodimer interface [polypeptide binding]; other site 381666005318 catalytic residue [active] 381666005319 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666005320 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 381666005321 NAD(P) binding site [chemical binding]; other site 381666005322 catalytic residues [active] 381666005323 tricarballylate dehydrogenase; Validated; Region: PRK08274 381666005324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666005325 NMT1-like family; Region: NMT1_2; cl15260 381666005326 SurA N-terminal domain; Region: SurA_N_3; cl07813 381666005327 periplasmic folding chaperone; Provisional; Region: PRK10788 381666005328 PPIC-type PPIASE domain; Region: Rotamase; cl08278 381666005329 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 381666005330 active site 381666005331 catalytic triad [active] 381666005332 oxyanion hole [active] 381666005333 switch loop; other site 381666005334 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 381666005335 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 381666005336 Walker A/P-loop; other site 381666005337 ATP binding site [chemical binding]; other site 381666005338 Q-loop/lid; other site 381666005339 ABC transporter signature motif; other site 381666005340 Walker B; other site 381666005341 D-loop; other site 381666005342 H-loop/switch region; other site 381666005343 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 381666005344 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 381666005345 active site 381666005346 dimer interface [polypeptide binding]; other site 381666005347 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 381666005348 dimer interface [polypeptide binding]; other site 381666005349 active site 381666005350 EamA-like transporter family; Region: EamA; cl01037 381666005351 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 381666005352 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 381666005353 putative substrate binding site [chemical binding]; other site 381666005354 putative ATP binding site [chemical binding]; other site 381666005355 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 381666005356 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666005357 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 381666005358 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 381666005359 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 381666005360 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 381666005361 amidase; Provisional; Region: PRK07056 381666005362 Amidase; Region: Amidase; cl11426 381666005363 Helix-turn-helix domains; Region: HTH; cl00088 381666005364 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 381666005365 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 381666005366 dimerization interface [polypeptide binding]; other site 381666005367 ATP binding site [chemical binding]; other site 381666005368 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 381666005369 dimerization interface [polypeptide binding]; other site 381666005370 ATP binding site [chemical binding]; other site 381666005371 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 381666005372 putative active site [active] 381666005373 catalytic triad [active] 381666005374 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 381666005375 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 381666005376 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 381666005377 PPIC-type PPIASE domain; Region: Rotamase; cl08278 381666005378 BolA-like protein; Region: BolA; cl00386 381666005379 Intracellular septation protein A; Region: IspA; cl01098 381666005380 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 381666005381 SelR domain; Region: SelR; pfam01641 381666005382 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 381666005383 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 381666005384 AMP-binding enzyme; Region: AMP-binding; cl15778 381666005385 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666005386 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666005387 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 381666005388 putative ligand binding site [chemical binding]; other site 381666005389 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 381666005390 TM-ABC transporter signature motif; other site 381666005391 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 381666005392 TM-ABC transporter signature motif; other site 381666005393 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666005394 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 381666005395 Walker A/P-loop; other site 381666005396 ATP binding site [chemical binding]; other site 381666005397 Q-loop/lid; other site 381666005398 ABC transporter signature motif; other site 381666005399 Walker B; other site 381666005400 D-loop; other site 381666005401 H-loop/switch region; other site 381666005402 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666005403 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 381666005404 Walker A/P-loop; other site 381666005405 ATP binding site [chemical binding]; other site 381666005406 Q-loop/lid; other site 381666005407 ABC transporter signature motif; other site 381666005408 Walker B; other site 381666005409 D-loop; other site 381666005410 H-loop/switch region; other site 381666005411 lysine transporter; Provisional; Region: PRK10836 381666005412 Spore germination protein; Region: Spore_permease; cl15802 381666005413 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 381666005414 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 381666005415 substrate binding site [chemical binding]; other site 381666005416 oxyanion hole (OAH) forming residues; other site 381666005417 trimer interface [polypeptide binding]; other site 381666005418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666005419 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666005420 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666005421 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 381666005422 Isochorismatase family; Region: Isochorismatase; pfam00857 381666005423 catalytic triad [active] 381666005424 metal binding site [ion binding]; metal-binding site 381666005425 conserved cis-peptide bond; other site 381666005426 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 381666005427 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 381666005428 dimer interface [polypeptide binding]; other site 381666005429 active site 381666005430 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 381666005431 CoenzymeA binding site [chemical binding]; other site 381666005432 subunit interaction site [polypeptide binding]; other site 381666005433 PHB binding site; other site 381666005434 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 381666005435 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 381666005436 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666005437 active site 381666005438 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 381666005439 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 381666005440 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666005441 NAD(P) binding site [chemical binding]; other site 381666005442 active site 381666005443 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 381666005444 CoenzymeA binding site [chemical binding]; other site 381666005445 subunit interaction site [polypeptide binding]; other site 381666005446 PHB binding site; other site 381666005447 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 381666005448 Prostaglandin dehydrogenases; Region: PGDH; cd05288 381666005449 NAD(P) binding site [chemical binding]; other site 381666005450 substrate binding site [chemical binding]; other site 381666005451 dimer interface [polypeptide binding]; other site 381666005452 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 381666005453 intersubunit interface [polypeptide binding]; other site 381666005454 active site 381666005455 Zn2+ binding site [ion binding]; other site 381666005456 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666005457 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 381666005458 C-terminal domain interface [polypeptide binding]; other site 381666005459 GSH binding site (G-site) [chemical binding]; other site 381666005460 dimer interface [polypeptide binding]; other site 381666005461 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 381666005462 substrate binding pocket (H-site) [chemical binding]; other site 381666005463 N-terminal domain interface [polypeptide binding]; other site 381666005464 hypothetical protein; Provisional; Region: PRK06194 381666005465 classical (c) SDRs; Region: SDR_c; cd05233 381666005466 NAD(P) binding site [chemical binding]; other site 381666005467 active site 381666005468 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666005469 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666005470 DNA-binding site [nucleotide binding]; DNA binding site 381666005471 UTRA domain; Region: UTRA; cl01230 381666005472 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666005473 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 381666005474 putative ligand binding site [chemical binding]; other site 381666005475 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 381666005476 TM-ABC transporter signature motif; other site 381666005477 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 381666005478 TM-ABC transporter signature motif; other site 381666005479 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666005480 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 381666005481 Walker A/P-loop; other site 381666005482 ATP binding site [chemical binding]; other site 381666005483 Q-loop/lid; other site 381666005484 ABC transporter signature motif; other site 381666005485 Walker B; other site 381666005486 D-loop; other site 381666005487 H-loop/switch region; other site 381666005488 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666005489 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 381666005490 Walker A/P-loop; other site 381666005491 ATP binding site [chemical binding]; other site 381666005492 Q-loop/lid; other site 381666005493 ABC transporter signature motif; other site 381666005494 Walker B; other site 381666005495 D-loop; other site 381666005496 H-loop/switch region; other site 381666005497 Isochorismatase family; Region: Isochorismatase; pfam00857 381666005498 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 381666005499 catalytic triad [active] 381666005500 conserved cis-peptide bond; other site 381666005501 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 381666005502 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 381666005503 putative active site [active] 381666005504 putative catalytic site [active] 381666005505 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 381666005506 putative active site [active] 381666005507 putative catalytic site [active] 381666005508 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 381666005509 active site 381666005510 catalytic residues [active] 381666005511 metal binding site [ion binding]; metal-binding site 381666005512 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666005513 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666005514 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 381666005515 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 381666005516 substrate binding site [chemical binding]; other site 381666005517 ligand binding site [chemical binding]; other site 381666005518 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 381666005519 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 381666005520 substrate binding site [chemical binding]; other site 381666005521 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 381666005522 trimer interface [polypeptide binding]; other site 381666005523 eyelet of channel; other site 381666005524 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 ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 381666005525 putative ADP-ribose binding site [chemical binding]; other site 381666005526 putative active site [active] 381666005527 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 381666005528 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 381666005529 putative active site [active] 381666005530 metal binding site [ion binding]; metal-binding site 381666005531 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; cl12031 381666005532 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 381666005533 substrate binding pocket [chemical binding]; other site 381666005534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666005535 NMT1-like family; Region: NMT1_2; cl15260 381666005536 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 381666005537 active site 381666005538 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 381666005539 putative NAD(P) binding site [chemical binding]; other site 381666005540 active site 381666005541 putative substrate binding site [chemical binding]; other site 381666005542 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 381666005543 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 381666005544 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666005545 putative substrate translocation pore; other site 381666005546 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 381666005547 intersubunit interface [polypeptide binding]; other site 381666005548 active site 381666005549 Zn2+ binding site [ion binding]; other site 381666005550 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 381666005551 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 381666005552 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666005553 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666005554 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666005555 DNA-binding site [nucleotide binding]; DNA binding site 381666005556 FCD domain; Region: FCD; cl11656 381666005557 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666005558 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666005559 Coenzyme A binding pocket [chemical binding]; other site 381666005560 NRDE protein; Region: NRDE; cl01315 381666005561 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 381666005562 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 381666005563 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 381666005564 YceG-like family; Region: YceG; pfam02618 381666005565 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 381666005566 dimerization interface [polypeptide binding]; other site 381666005567 thymidylate kinase; Validated; Region: tmk; PRK00698 381666005568 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 381666005569 TMP-binding site; other site 381666005570 ATP-binding site [chemical binding]; other site 381666005571 DNA polymerase III subunit delta'; Validated; Region: PRK06964 381666005572 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666005573 PilZ domain; Region: PilZ; cl01260 381666005574 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 381666005575 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666005576 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 381666005577 active site 381666005578 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 381666005579 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 381666005580 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 381666005581 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 381666005582 TIGR03440 family protein; Region: unchr_TIGR03440 381666005583 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 381666005584 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 381666005585 LysR family transcriptional regulator; Provisional; Region: PRK14997 381666005586 Helix-turn-helix domains; Region: HTH; cl00088 381666005587 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 381666005588 putative effector binding pocket; other site 381666005589 putative dimerization interface [polypeptide binding]; other site 381666005590 DoxX; Region: DoxX; cl00976 381666005591 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 381666005592 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 381666005593 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666005594 active site 381666005595 phosphorylation site [posttranslational modification] 381666005596 intermolecular recognition site; other site 381666005597 dimerization interface [polypeptide binding]; other site 381666005598 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 381666005599 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666005600 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 381666005601 Cupin domain; Region: Cupin_2; cl09118 381666005602 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666005603 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 381666005604 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666005605 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 381666005606 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666005607 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666005608 Helix-turn-helix domains; Region: HTH; cl00088 381666005609 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 381666005610 dimerization interface [polypeptide binding]; other site 381666005611 NMT1-like family; Region: NMT1_2; cl15260 381666005612 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 381666005613 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 381666005614 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 381666005615 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666005616 DNA-binding site [nucleotide binding]; DNA binding site 381666005617 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 381666005618 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666005619 homodimer interface [polypeptide binding]; other site 381666005620 catalytic residue [active] 381666005621 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 381666005622 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 381666005623 Cytochrome c; Region: Cytochrom_C; cl11414 381666005624 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 381666005625 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 381666005626 putative acyl-acceptor binding pocket; other site 381666005627 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; cl01155 381666005628 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 381666005629 Surface antigen; Region: Bac_surface_Ag; cl03097 381666005630 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 381666005631 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 381666005632 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 381666005633 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 381666005634 motif II; other site 381666005635 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 381666005636 Sulfatase; Region: Sulfatase; cl10460 381666005637 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; cl16911 381666005638 MoxR-like ATPases [General function prediction only]; Region: COG0714 381666005639 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666005640 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 381666005641 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 381666005642 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 381666005643 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 381666005644 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 381666005645 metal ion-dependent adhesion site (MIDAS); other site 381666005646 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 381666005647 metal ion-dependent adhesion site (MIDAS); other site 381666005648 Oxygen tolerance; Region: BatD; pfam13584 381666005649 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 381666005650 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 381666005651 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; cl15357 381666005652 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 381666005653 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666005654 Helix-turn-helix domains; Region: HTH; cl00088 381666005655 AsnC family; Region: AsnC_trans_reg; pfam01037 381666005656 Cysteine dioxygenase type I; Region: CDO_I; cl15835 381666005657 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 381666005658 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 381666005659 acetyl-CoA synthetase; Provisional; Region: PRK00174 381666005660 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 381666005661 AMP-binding enzyme; Region: AMP-binding; cl15778 381666005662 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666005663 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 381666005664 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 381666005665 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 381666005666 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 381666005667 HSP70 interaction site [polypeptide binding]; other site 381666005668 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; cl16911 381666005669 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 381666005670 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 381666005671 S-adenosylmethionine binding site [chemical binding]; other site 381666005672 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 381666005673 DNA-K related protein; Region: DUF3731; pfam12531 381666005674 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 381666005675 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 381666005676 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 381666005677 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 381666005678 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 381666005679 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 381666005680 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666005681 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 381666005682 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 381666005683 DNA binding residues [nucleotide binding] 381666005684 TIGR03442 family protein; Region: TIGR03442 381666005685 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 381666005686 putative active site [active] 381666005687 putative dimer interface [polypeptide binding]; other site 381666005688 benzoate transport; Region: 2A0115; TIGR00895 381666005689 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666005690 putative substrate translocation pore; other site 381666005691 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666005692 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 381666005693 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666005694 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 381666005695 [2Fe-2S] cluster binding site [ion binding]; other site 381666005696 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 381666005697 inter-subunit interface; other site 381666005698 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 381666005699 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 381666005700 iron-sulfur cluster [ion binding]; other site 381666005701 [2Fe-2S] cluster binding site [ion binding]; other site 381666005702 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 381666005703 putative alpha subunit interface [polypeptide binding]; other site 381666005704 putative active site [active] 381666005705 putative substrate binding site [chemical binding]; other site 381666005706 Fe binding site [ion binding]; other site 381666005707 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666005708 Helix-turn-helix domains; Region: HTH; cl00088 381666005709 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 381666005710 substrate binding pocket [chemical binding]; other site 381666005711 dimerization interface [polypeptide binding]; other site 381666005712 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 381666005713 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 381666005714 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 381666005715 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 381666005716 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 381666005717 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 381666005718 Subunit I/III interface [polypeptide binding]; other site 381666005719 Subunit III/IV interface [polypeptide binding]; other site 381666005720 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 381666005721 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 381666005722 D-pathway; other site 381666005723 Putative ubiquinol binding site [chemical binding]; other site 381666005724 Low-spin heme (heme b) binding site [chemical binding]; other site 381666005725 Putative water exit pathway; other site 381666005726 Binuclear center (heme o3/CuB) [ion binding]; other site 381666005727 K-pathway; other site 381666005728 Putative proton exit pathway; other site 381666005729 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 381666005730 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 381666005731 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 381666005732 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 381666005733 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666005734 DNA-binding site [nucleotide binding]; DNA binding site 381666005735 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 381666005736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666005737 homodimer interface [polypeptide binding]; other site 381666005738 catalytic residue [active] 381666005739 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666005740 Helix-turn-helix domains; Region: HTH; cl00088 381666005741 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 381666005742 dimerization interface [polypeptide binding]; other site 381666005743 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666005744 NMT1-like family; Region: NMT1_2; cl15260 381666005745 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 381666005746 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 381666005747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666005748 homodimer interface [polypeptide binding]; other site 381666005749 catalytic residue [active] 381666005750 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666005751 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 381666005752 putative C-terminal domain interface [polypeptide binding]; other site 381666005753 putative GSH binding site (G-site) [chemical binding]; other site 381666005754 putative dimer interface [polypeptide binding]; other site 381666005755 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 381666005756 dimer interface [polypeptide binding]; other site 381666005757 N-terminal domain interface [polypeptide binding]; other site 381666005758 putative substrate binding pocket (H-site) [chemical binding]; other site 381666005759 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 381666005760 dimer interface [polypeptide binding]; other site 381666005761 DNA polymerase II; Reviewed; Region: PRK05762 381666005762 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 381666005763 active site 381666005764 catalytic site [active] 381666005765 substrate binding site [chemical binding]; other site 381666005766 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 381666005767 active site 381666005768 metal-binding site 381666005769 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666005770 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 381666005771 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666005772 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666005773 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666005774 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666005775 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 381666005776 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666005777 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 381666005778 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 381666005779 ATP adenylyltransferase; Region: ATP_transf; pfam09830 381666005780 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 381666005781 Helix-turn-helix domains; Region: HTH; cl00088 381666005782 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 381666005783 dimerization interface [polypeptide binding]; other site 381666005784 Helix-turn-helix domains; Region: HTH; cl00088 381666005785 OsmC-like protein; Region: OsmC; cl00767 381666005786 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666005787 Helix-turn-helix domains; Region: HTH; cl00088 381666005788 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 381666005789 FMN binding site [chemical binding]; other site 381666005790 active site 381666005791 substrate binding site [chemical binding]; other site 381666005792 catalytic residue [active] 381666005793 Peptidase family M48; Region: Peptidase_M48; cl12018 381666005794 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 381666005795 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666005796 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666005797 Family description; Region: UvrD_C_2; cl15862 381666005798 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 381666005799 Gram-negative bacterial tonB protein; Region: TonB; cl10048 381666005800 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 381666005801 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666005802 active site 381666005803 metal binding site [ion binding]; metal-binding site 381666005804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666005805 NMT1-like family; Region: NMT1_2; cl15260 381666005806 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 381666005807 Helix-turn-helix domain; Region: HTH_18; pfam12833 381666005808 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666005809 Phage integrase protein; Region: DUF3701; pfam12482 381666005810 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 381666005811 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 381666005812 Int/Topo IB signature motif; other site 381666005813 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 381666005814 DNA photolyase; Region: DNA_photolyase; pfam00875 381666005815 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 381666005816 Predicted permease [General function prediction only]; Region: COG2985 381666005817 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 381666005818 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; cl15357 381666005819 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; cl15357 381666005820 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 381666005821 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 381666005822 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666005823 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 381666005824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666005825 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666005826 Isochorismatase family; Region: Isochorismatase; pfam00857 381666005827 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 381666005828 catalytic triad [active] 381666005829 dimer interface [polypeptide binding]; other site 381666005830 conserved cis-peptide bond; other site 381666005831 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 381666005832 Helix-turn-helix domains; Region: HTH; cl00088 381666005833 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 381666005834 dimerization interface [polypeptide binding]; other site 381666005835 substrate binding pocket [chemical binding]; other site 381666005836 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 381666005837 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 381666005838 active site 381666005839 catalytic tetrad [active] 381666005840 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 381666005841 putative hydrophobic ligand binding site [chemical binding]; other site 381666005842 protein interface [polypeptide binding]; other site 381666005843 gate; other site 381666005844 Transcriptional regulators [Transcription]; Region: PurR; COG1609 381666005845 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 381666005846 DNA binding site [nucleotide binding] 381666005847 domain linker motif; other site 381666005848 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 381666005849 dimerization interface [polypeptide binding]; other site 381666005850 ligand binding site [chemical binding]; other site 381666005851 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 381666005852 histidinol dehydrogenase; Region: hisD; TIGR00069 381666005853 NAD binding site [chemical binding]; other site 381666005854 dimerization interface [polypeptide binding]; other site 381666005855 product binding site; other site 381666005856 substrate binding site [chemical binding]; other site 381666005857 zinc binding site [ion binding]; other site 381666005858 catalytic residues [active] 381666005859 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666005860 putative substrate translocation pore; other site 381666005861 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 381666005862 FMN binding site [chemical binding]; other site 381666005863 active site 381666005864 substrate binding site [chemical binding]; other site 381666005865 catalytic residue [active] 381666005866 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666005867 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666005868 putative substrate translocation pore; other site 381666005869 enoyl-CoA hydratase; Provisional; Region: PRK07658 381666005870 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 381666005871 substrate binding site [chemical binding]; other site 381666005872 oxyanion hole (OAH) forming residues; other site 381666005873 trimer interface [polypeptide binding]; other site 381666005874 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666005875 AMP-binding enzyme; Region: AMP-binding; cl15778 381666005876 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666005877 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666005878 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 381666005879 catalytic loop [active] 381666005880 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 381666005881 iron binding site [ion binding]; other site 381666005882 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666005883 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 381666005884 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 381666005885 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666005886 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 381666005887 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666005888 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 381666005889 putative hydrophobic ligand binding site [chemical binding]; other site 381666005890 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666005891 Helix-turn-helix domains; Region: HTH; cl00088 381666005892 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 381666005893 dimerization interface [polypeptide binding]; other site 381666005894 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 381666005895 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 381666005896 active site 381666005897 catalytic triad [active] 381666005898 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 381666005899 oligomeric interface; other site 381666005900 homodimer interface [polypeptide binding]; other site 381666005901 putative active site [active] 381666005902 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 381666005903 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666005904 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 381666005905 Walker A/P-loop; other site 381666005906 ATP binding site [chemical binding]; other site 381666005907 Q-loop/lid; other site 381666005908 ABC transporter signature motif; other site 381666005909 Walker B; other site 381666005910 D-loop; other site 381666005911 H-loop/switch region; other site 381666005912 Putative cyclase; Region: Cyclase; cl00814 381666005913 Helix-turn-helix domains; Region: HTH; cl00088 381666005914 putative acyltransferase; Provisional; Region: PRK05790 381666005915 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 381666005916 dimer interface [polypeptide binding]; other site 381666005917 active site 381666005918 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 381666005919 putative active site [active] 381666005920 putative catalytic site [active] 381666005921 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 381666005922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666005923 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 381666005924 enoyl-CoA hydratase; Provisional; Region: PRK07511 381666005925 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 381666005926 substrate binding site [chemical binding]; other site 381666005927 oxyanion hole (OAH) forming residues; other site 381666005928 trimer interface [polypeptide binding]; other site 381666005929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666005930 NMT1-like family; Region: NMT1_2; cl15260 381666005931 AMP-binding domain protein; Validated; Region: PRK07529 381666005932 AMP-binding enzyme; Region: AMP-binding; cl15778 381666005933 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666005934 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 381666005935 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 381666005936 substrate binding site [chemical binding]; other site 381666005937 oxyanion hole (OAH) forming residues; other site 381666005938 trimer interface [polypeptide binding]; other site 381666005939 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 381666005940 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 381666005941 dimer interface [polypeptide binding]; other site 381666005942 active site 381666005943 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 381666005944 putative hydrophobic ligand binding site [chemical binding]; other site 381666005945 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666005946 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666005947 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666005948 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 381666005949 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666005950 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 381666005951 FAD binding domain; Region: FAD_binding_4; pfam01565 381666005952 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 381666005953 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666005954 Helix-turn-helix domains; Region: HTH; cl00088 381666005955 WHG domain; Region: WHG; pfam13305 381666005956 Helix-turn-helix domains; Region: HTH; cl00088 381666005957 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666005958 Helix-turn-helix domains; Region: HTH; cl00088 381666005959 benzoate transport; Region: 2A0115; TIGR00895 381666005960 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666005961 putative substrate translocation pore; other site 381666005962 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666005963 putative substrate translocation pore; other site 381666005964 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 381666005965 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 381666005966 XdhC Rossmann domain; Region: XdhC_C; pfam13478 381666005967 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 381666005968 N-terminal domain interface [polypeptide binding]; other site 381666005969 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 381666005970 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 381666005971 Amidase; Region: Amidase; cl11426 381666005972 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666005973 D-galactonate transporter; Region: 2A0114; TIGR00893 381666005974 putative substrate translocation pore; other site 381666005975 allantoate amidohydrolase; Reviewed; Region: PRK12893 381666005976 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 381666005977 active site 381666005978 metal binding site [ion binding]; metal-binding site 381666005979 dimer interface [polypeptide binding]; other site 381666005980 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 381666005981 homotrimer interaction site [polypeptide binding]; other site 381666005982 putative active site [active] 381666005983 Creatinine amidohydrolase; Region: Creatininase; cl00618 381666005984 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666005985 D-galactonate transporter; Region: 2A0114; TIGR00893 381666005986 putative substrate translocation pore; other site 381666005987 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666005988 Helix-turn-helix domains; Region: HTH; cl00088 381666005989 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 381666005990 dimerization interface [polypeptide binding]; other site 381666005991 Helix-turn-helix domains; Region: HTH; cl00088 381666005992 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666005993 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666005994 putative substrate translocation pore; other site 381666005995 Integrase core domain; Region: rve; cl01316 381666005996 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 381666005997 dinuclear metal binding motif [ion binding]; other site 381666005998 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666005999 Cupin domain; Region: Cupin_2; cl09118 381666006000 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 381666006001 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 381666006002 dimer interface [polypeptide binding]; other site 381666006003 TPP-binding site [chemical binding]; other site 381666006004 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 381666006005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666006006 NAD(P) binding site [chemical binding]; other site 381666006007 active site 381666006008 osmolarity response regulator; Provisional; Region: ompR; PRK09468 381666006009 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666006010 active site 381666006011 phosphorylation site [posttranslational modification] 381666006012 intermolecular recognition site; other site 381666006013 dimerization interface [polypeptide binding]; other site 381666006014 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 381666006015 DNA binding site [nucleotide binding] 381666006016 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 381666006017 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 381666006018 ATP binding site [chemical binding]; other site 381666006019 Mg2+ binding site [ion binding]; other site 381666006020 G-X-G motif; other site 381666006021 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 381666006022 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 381666006023 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 381666006024 catalytic residues [active] 381666006025 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 381666006026 catalytic residues [active] 381666006027 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 381666006028 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666006029 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 381666006030 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666006031 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 381666006032 substrate binding pocket [chemical binding]; other site 381666006033 dimerization interface [polypeptide binding]; other site 381666006034 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 381666006035 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666006036 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666006037 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666006038 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 381666006039 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666006040 Predicted transcriptional regulator [Transcription]; Region: COG1959 381666006041 Helix-turn-helix domains; Region: HTH; cl00088 381666006042 Helix-turn-helix domains; Region: HTH; cl00088 381666006043 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 381666006044 NAD(P) binding site [chemical binding]; other site 381666006045 catalytic residues [active] 381666006046 Cupin domain; Region: Cupin_2; cl09118 381666006047 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666006048 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666006049 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666006050 Protein of unknown function, DUF417; Region: DUF417; cl01162 381666006051 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666006052 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 381666006053 ligand binding site [chemical binding]; other site 381666006054 flexible hinge region; other site 381666006055 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 381666006056 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666006057 Uncharacterized conserved protein [Function unknown]; Region: COG5476 381666006058 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 381666006059 MlrC C-terminus; Region: MlrC_C; pfam07171 381666006060 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 381666006061 homotrimer interaction site [polypeptide binding]; other site 381666006062 putative active site [active] 381666006063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666006064 NMT1-like family; Region: NMT1_2; cl15260 381666006065 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 381666006066 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 381666006067 catalytic residues [active] 381666006068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666006069 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 381666006070 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 381666006071 active site 381666006072 dimer interface [polypeptide binding]; other site 381666006073 metal binding site [ion binding]; metal-binding site 381666006074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666006075 NMT1-like family; Region: NMT1_2; cl15260 381666006076 Helix-turn-helix domains; Region: HTH; cl00088 381666006077 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 381666006078 putative effector binding pocket; other site 381666006079 dimerization interface [polypeptide binding]; other site 381666006080 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 381666006081 FMN binding site [chemical binding]; other site 381666006082 active site 381666006083 substrate binding site [chemical binding]; other site 381666006084 catalytic residue [active] 381666006085 OsmC-like protein; Region: OsmC; cl00767 381666006086 Epoxide hydrolase N terminus; Region: EHN; pfam06441 381666006087 haloalkane dehalogenase; Provisional; Region: PRK03204 381666006088 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 381666006089 Cupin domain; Region: Cupin_2; cl09118 381666006090 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 381666006091 dimer interface [polypeptide binding]; other site 381666006092 FMN binding site [chemical binding]; other site 381666006093 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 381666006094 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666006095 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 381666006096 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 381666006097 C-terminal domain interface [polypeptide binding]; other site 381666006098 GSH binding site (G-site) [chemical binding]; other site 381666006099 dimer interface [polypeptide binding]; other site 381666006100 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 381666006101 dimer interface [polypeptide binding]; other site 381666006102 N-terminal domain interface [polypeptide binding]; other site 381666006103 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666006104 Coenzyme A binding pocket [chemical binding]; other site 381666006105 Cupin domain; Region: Cupin_2; cl09118 381666006106 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666006107 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666006108 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666006109 Protein of unknown function, DUF417; Region: DUF417; cl01162 381666006110 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 381666006111 homotrimer interaction site [polypeptide binding]; other site 381666006112 putative active site [active] 381666006113 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 381666006114 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 381666006115 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 381666006116 active site 381666006117 catalytic residues [active] 381666006118 metal binding site [ion binding]; metal-binding site 381666006119 DmpG-like communication domain; Region: DmpG_comm; pfam07836 381666006120 cyclase homology domain; Region: CHD; cd07302 381666006121 nucleotidyl binding site; other site 381666006122 metal binding site [ion binding]; metal-binding site 381666006123 dimer interface [polypeptide binding]; other site 381666006124 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 381666006125 Cupin domain; Region: Cupin_2; cl09118 381666006126 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 381666006127 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 381666006128 active site 381666006129 nucleophile elbow; other site 381666006130 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 381666006131 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666006132 NAD(P) binding site [chemical binding]; other site 381666006133 active site 381666006134 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 381666006135 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666006136 DoxX; Region: DoxX; cl00976 381666006137 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 381666006138 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666006139 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666006140 active site 381666006141 phosphorylation site [posttranslational modification] 381666006142 intermolecular recognition site; other site 381666006143 dimerization interface [polypeptide binding]; other site 381666006144 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 381666006145 DNA binding site [nucleotide binding] 381666006146 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 381666006147 dimer interface [polypeptide binding]; other site 381666006148 phosphorylation site [posttranslational modification] 381666006149 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 381666006150 ATP binding site [chemical binding]; other site 381666006151 Mg2+ binding site [ion binding]; other site 381666006152 G-X-G motif; other site 381666006153 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 381666006154 Protein of unknown function (DUF692); Region: DUF692; cl01263 381666006155 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 381666006156 PAS fold; Region: PAS_3; pfam08447 381666006157 putative active site [active] 381666006158 heme pocket [chemical binding]; other site 381666006159 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 381666006160 Transposase; Region: DEDD_Tnp_IS110; pfam01548 381666006161 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 381666006162 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666006163 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 381666006164 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 381666006165 substrate binding site [chemical binding]; other site 381666006166 oxyanion hole (OAH) forming residues; other site 381666006167 trimer interface [polypeptide binding]; other site 381666006168 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 381666006169 active site 1 [active] 381666006170 DoxX; Region: DoxX; cl00976 381666006171 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 381666006172 ligand binding site [chemical binding]; other site 381666006173 flexible hinge region; other site 381666006174 Helix-turn-helix domains; Region: HTH; cl00088 381666006175 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 381666006176 heme-binding site [chemical binding]; other site 381666006177 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; cl00161 381666006178 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666006179 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 381666006180 Transposase; Region: DDE_Tnp_ISL3; pfam01610 381666006181 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 381666006182 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 381666006183 active site 381666006184 substrate binding site [chemical binding]; other site 381666006185 metal binding site [ion binding]; metal-binding site 381666006186 Cupin domain; Region: Cupin_2; cl09118 381666006187 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 381666006188 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 381666006189 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 381666006190 NADP binding site [chemical binding]; other site 381666006191 active site 381666006192 putative substrate binding site [chemical binding]; other site 381666006193 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 381666006194 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 381666006195 NAD binding site [chemical binding]; other site 381666006196 substrate binding site [chemical binding]; other site 381666006197 homodimer interface [polypeptide binding]; other site 381666006198 active site 381666006199 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 381666006200 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 381666006201 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 381666006202 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666006203 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 381666006204 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 381666006205 Substrate binding site; other site 381666006206 Cupin domain; Region: Cupin_2; cl09118 381666006207 Domain of unknown function (DUF4370); Region: DUF4370; cl14727 381666006208 Bacterial sugar transferase; Region: Bac_transf; cl00939 381666006209 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 381666006210 polysaccharide export protein Wza; Provisional; Region: PRK15078 381666006211 tyrosine kinase; Provisional; Region: PRK11519 381666006212 Chain length determinant protein; Region: Wzz; cl15801 381666006213 Chain length determinant protein; Region: Wzz; cl15801 381666006214 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 381666006215 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666006216 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 381666006217 active site 381666006218 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 381666006219 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 381666006220 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 381666006221 putative ADP-binding pocket [chemical binding]; other site 381666006222 MatE; Region: MatE; cl10513 381666006223 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 381666006224 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 381666006225 substrate binding site; other site 381666006226 tetramer interface; other site 381666006227 Right handed beta helix region; Region: Beta_helix; pfam13229 381666006228 OpgC protein; Region: OpgC_C; cl00792 381666006229 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 381666006230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666006231 ATP binding site [chemical binding]; other site 381666006232 substrate interface [chemical binding]; other site 381666006233 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 381666006234 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666006235 hypothetical protein; Provisional; Region: PRK14851 381666006236 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 381666006237 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 381666006238 S-adenosylmethionine binding site [chemical binding]; other site 381666006239 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; cl16911 381666006240 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 381666006241 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 381666006242 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 381666006243 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 381666006244 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 381666006245 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 381666006246 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 381666006247 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 381666006248 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 381666006249 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 381666006250 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 381666006251 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 381666006252 Amidase; Region: Amidase; cl11426 381666006253 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666006254 NMT1-like family; Region: NMT1_2; cl15260 381666006255 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 381666006256 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 381666006257 Trp docking motif [polypeptide binding]; other site 381666006258 cytochrome domain interface [polypeptide binding]; other site 381666006259 active site 381666006260 Cytochrome c; Region: Cytochrom_C; cl11414 381666006261 enoyl-CoA hydratase; Provisional; Region: PRK09245 381666006262 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 381666006263 substrate binding site [chemical binding]; other site 381666006264 oxyanion hole (OAH) forming residues; other site 381666006265 trimer interface [polypeptide binding]; other site 381666006266 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666006267 Helix-turn-helix domains; Region: HTH; cl00088 381666006268 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 381666006269 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 381666006270 dimer interface [polypeptide binding]; other site 381666006271 active site 381666006272 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666006273 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666006274 NAD(P) binding site [chemical binding]; other site 381666006275 active site 381666006276 enoyl-CoA hydratase; Provisional; Region: PRK08252 381666006277 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 381666006278 substrate binding site [chemical binding]; other site 381666006279 oxyanion hole (OAH) forming residues; other site 381666006280 trimer interface [polypeptide binding]; other site 381666006281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666006282 NMT1-like family; Region: NMT1_2; cl15260 381666006283 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 381666006284 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666006285 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 381666006286 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666006287 Mechanosensitive ion channel; Region: MS_channel; pfam00924 381666006288 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666006289 Helix-turn-helix domains; Region: HTH; cl00088 381666006290 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 381666006291 dimerization interface [polypeptide binding]; other site 381666006292 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 381666006293 intersubunit interface [polypeptide binding]; other site 381666006294 active site 381666006295 Zn2+ binding site [ion binding]; other site 381666006296 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666006297 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666006298 putative substrate translocation pore; other site 381666006299 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 381666006300 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 381666006301 putative catalytic residue [active] 381666006302 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 381666006303 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666006304 Helix-turn-helix domains; Region: HTH; cl00088 381666006305 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 381666006306 dimerization interface [polypeptide binding]; other site 381666006307 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 381666006308 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 381666006309 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 381666006310 Zn2+ binding site [ion binding]; other site 381666006311 Mg2+ binding site [ion binding]; other site 381666006312 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 381666006313 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 381666006314 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 381666006315 dimer interface [polypeptide binding]; other site 381666006316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666006317 catalytic residue [active] 381666006318 Propionate catabolism activator; Region: PrpR_N; pfam06506 381666006319 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 381666006320 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 381666006321 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 381666006322 Walker A motif; other site 381666006323 ATP binding site [chemical binding]; other site 381666006324 Walker B motif; other site 381666006325 arginine finger; other site 381666006326 Helix-turn-helix domains; Region: HTH; cl00088 381666006327 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 381666006328 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 381666006329 tetramer interface [polypeptide binding]; other site 381666006330 active site 381666006331 Mg2+/Mn2+ binding site [ion binding]; other site 381666006332 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 381666006333 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 381666006334 dimer interface [polypeptide binding]; other site 381666006335 active site 381666006336 citrylCoA binding site [chemical binding]; other site 381666006337 oxalacetate/citrate binding site [chemical binding]; other site 381666006338 coenzyme A binding site [chemical binding]; other site 381666006339 catalytic triad [active] 381666006340 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 381666006341 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 381666006342 substrate binding site [chemical binding]; other site 381666006343 ligand binding site [chemical binding]; other site 381666006344 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 381666006345 substrate binding site [chemical binding]; other site 381666006346 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 381666006347 PrpF protein; Region: PrpF; pfam04303 381666006348 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 381666006349 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 381666006350 active site 381666006351 homodimer interface [polypeptide binding]; other site 381666006352 homotetramer interface [polypeptide binding]; other site 381666006353 Cupin domain; Region: Cupin_2; cl09118 381666006354 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 381666006355 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666006356 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 381666006357 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666006358 Cation efflux family; Region: Cation_efflux; cl00316 381666006359 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 381666006360 CoenzymeA binding site [chemical binding]; other site 381666006361 subunit interaction site [polypeptide binding]; other site 381666006362 PHB binding site; other site 381666006363 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 381666006364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 381666006365 MOSC domain; Region: MOSC; pfam03473 381666006366 3-alpha domain; Region: 3-alpha; pfam03475 381666006367 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 381666006368 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 381666006369 catalytic triad [active] 381666006370 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 381666006371 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 381666006372 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 381666006373 active site 381666006374 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 381666006375 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666006376 NAD binding site [chemical binding]; other site 381666006377 catalytic residues [active] 381666006378 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 381666006379 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666006380 Walker A/P-loop; other site 381666006381 ATP binding site [chemical binding]; other site 381666006382 Q-loop/lid; other site 381666006383 ABC transporter signature motif; other site 381666006384 Walker B; other site 381666006385 D-loop; other site 381666006386 H-loop/switch region; other site 381666006387 ABC transporter; Region: ABC_tran_2; pfam12848 381666006388 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 381666006389 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 381666006390 dimer interface [polypeptide binding]; other site 381666006391 catalytic triad [active] 381666006392 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 381666006393 nucleoside/Zn binding site; other site 381666006394 dimer interface [polypeptide binding]; other site 381666006395 catalytic motif [active] 381666006396 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 381666006397 active site 381666006398 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 381666006399 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 381666006400 FeS/SAM binding site; other site 381666006401 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 381666006402 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 381666006403 dimerization interface [polypeptide binding]; other site 381666006404 NMT1-like family; Region: NMT1_2; cl15260 381666006405 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; cl01461 381666006406 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 381666006407 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666006408 Walker A/P-loop; other site 381666006409 ATP binding site [chemical binding]; other site 381666006410 Q-loop/lid; other site 381666006411 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 381666006412 ABC transporter signature motif; other site 381666006413 Walker B; other site 381666006414 D-loop; other site 381666006415 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 381666006416 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 381666006417 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 381666006418 putative active site [active] 381666006419 putative metal binding site [ion binding]; other site 381666006420 putative oxidoreductase; Provisional; Region: PRK10083 381666006421 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 381666006422 putative NAD(P) binding site [chemical binding]; other site 381666006423 catalytic Zn binding site [ion binding]; other site 381666006424 structural Zn binding site [ion binding]; other site 381666006425 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 381666006426 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 381666006427 putative active site pocket [active] 381666006428 putative metal binding site [ion binding]; other site 381666006429 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666006430 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666006431 DNA-binding site [nucleotide binding]; DNA binding site 381666006432 FCD domain; Region: FCD; cl11656 381666006433 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 381666006434 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 381666006435 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 381666006436 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 381666006437 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 381666006438 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 381666006439 DctM-like transporters; Region: DctM; pfam06808 381666006440 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 381666006441 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 381666006442 DNA binding residues [nucleotide binding] 381666006443 dimerization interface [polypeptide binding]; other site 381666006444 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 381666006445 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 381666006446 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 381666006447 B12 binding site [chemical binding]; other site 381666006448 biosynthesis cluster domain; Region: biosyn_clust_1; cl14822 381666006449 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 381666006450 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666006451 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 381666006452 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 381666006453 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 381666006454 dimerization interface [polypeptide binding]; other site 381666006455 putative ATP binding site [chemical binding]; other site 381666006456 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666006457 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 381666006458 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 381666006459 FeS/SAM binding site; other site 381666006460 Predicted amidohydrolase [General function prediction only]; Region: COG0388 381666006461 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 381666006462 putative active site [active] 381666006463 catalytic triad [active] 381666006464 putative dimer interface [polypeptide binding]; other site 381666006465 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 381666006466 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 381666006467 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666006468 DNA-binding site [nucleotide binding]; DNA binding site 381666006469 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 381666006470 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666006471 homodimer interface [polypeptide binding]; other site 381666006472 catalytic residue [active] 381666006473 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666006474 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; cl12031 381666006475 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 381666006476 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666006477 putative NAD(P) binding site [chemical binding]; other site 381666006478 active site 381666006479 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 381666006480 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 381666006481 catalytic loop [active] 381666006482 iron binding site [ion binding]; other site 381666006483 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 381666006484 FAD binding pocket [chemical binding]; other site 381666006485 FAD binding motif [chemical binding]; other site 381666006486 phosphate binding motif [ion binding]; other site 381666006487 beta-alpha-beta structure motif; other site 381666006488 NAD binding pocket [chemical binding]; other site 381666006489 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 381666006490 inter-subunit interface; other site 381666006491 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 381666006492 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 381666006493 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 381666006494 putative alpha subunit interface [polypeptide binding]; other site 381666006495 putative active site [active] 381666006496 putative substrate binding site [chemical binding]; other site 381666006497 Fe binding site [ion binding]; other site 381666006498 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 381666006499 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 381666006500 dimer interface [polypeptide binding]; other site 381666006501 active site 381666006502 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 381666006503 Helix-turn-helix domains; Region: HTH; cl00088 381666006504 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 381666006505 dimerizarion interface [polypeptide binding]; other site 381666006506 CrgA pocket; other site 381666006507 substrate binding pocket [chemical binding]; other site 381666006508 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 381666006509 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 381666006510 octamer interface [polypeptide binding]; other site 381666006511 active site 381666006512 Muconolactone delta-isomerase; Region: MIase; cl01992 381666006513 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 381666006514 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 381666006515 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666006516 Helix-turn-helix domains; Region: HTH; cl00088 381666006517 AMP-binding domain protein; Validated; Region: PRK08315 381666006518 AMP-binding enzyme; Region: AMP-binding; cl15778 381666006519 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666006520 isovaleryl-CoA dehydrogenase; Region: PLN02519 381666006521 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 381666006522 substrate binding site [chemical binding]; other site 381666006523 FAD binding site [chemical binding]; other site 381666006524 catalytic base [active] 381666006525 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 381666006526 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 381666006527 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 381666006528 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 381666006529 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666006530 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 381666006531 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 381666006532 carboxyltransferase (CT) interaction site; other site 381666006533 biotinylation site [posttranslational modification]; other site 381666006534 S-adenosylmethionine synthetase (AdoMet synthetase); Region: AdoMet_Synthase; pfam01941 381666006535 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 381666006536 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 381666006537 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 381666006538 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 381666006539 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 381666006540 Phospholipid methyltransferase; Region: PEMT; cl00763 381666006541 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666006542 active site 381666006543 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 381666006544 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666006545 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 381666006546 dimerization interface [polypeptide binding]; other site 381666006547 putative DNA binding site [nucleotide binding]; other site 381666006548 putative Zn2+ binding site [ion binding]; other site 381666006549 Predicted transporter component [General function prediction only]; Region: COG2391 381666006550 Predicted transporter component [General function prediction only]; Region: COG2391 381666006551 Sulphur transport; Region: Sulf_transp; cl01018 381666006552 PAS domain S-box; Region: sensory_box; TIGR00229 381666006553 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 381666006554 putative active site [active] 381666006555 heme pocket [chemical binding]; other site 381666006556 PAS domain S-box; Region: sensory_box; TIGR00229 381666006557 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 381666006558 putative active site [active] 381666006559 heme pocket [chemical binding]; other site 381666006560 Histidine kinase; Region: HisKA_3; pfam07730 381666006561 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 381666006562 ATP binding site [chemical binding]; other site 381666006563 Mg2+ binding site [ion binding]; other site 381666006564 G-X-G motif; other site 381666006565 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 381666006566 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 381666006567 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 381666006568 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 381666006569 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 381666006570 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 381666006571 AAA domain; Region: AAA_33; pfam13671 381666006572 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666006573 active site 381666006574 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 381666006575 putative FMN binding site [chemical binding]; other site 381666006576 NADPH bind site [chemical binding]; other site 381666006577 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 381666006578 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 381666006579 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 381666006580 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 381666006581 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 381666006582 ring oligomerisation interface [polypeptide binding]; other site 381666006583 ATP/Mg binding site [chemical binding]; other site 381666006584 stacking interactions; other site 381666006585 hinge regions; other site 381666006586 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 381666006587 BON domain; Region: BON; cl02771 381666006588 BON domain; Region: BON; cl02771 381666006589 BON domain; Region: BON; cl02771 381666006590 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666006591 active site 381666006592 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 381666006593 putative FMN binding site [chemical binding]; other site 381666006594 NADPH bind site [chemical binding]; other site 381666006595 UV-endonuclease UvdE; Region: UvdE; cl10036 381666006596 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 381666006597 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 381666006598 NAD(P) binding site [chemical binding]; other site 381666006599 homotetramer interface [polypeptide binding]; other site 381666006600 homodimer interface [polypeptide binding]; other site 381666006601 active site 381666006602 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 381666006603 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 381666006604 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 381666006605 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 381666006606 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 381666006607 Ligand Binding Site [chemical binding]; other site 381666006608 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 381666006609 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 381666006610 Ligand Binding Site [chemical binding]; other site 381666006611 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 381666006612 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 381666006613 Ligand Binding Site [chemical binding]; other site 381666006614 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 381666006615 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 381666006616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666006617 Repair protein; Region: Repair_PSII; cl01535 381666006618 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 381666006619 thymidine phosphorylase; Provisional; Region: PRK04350 381666006620 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 381666006621 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 381666006622 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 381666006623 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 381666006624 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 381666006625 ligand binding site [chemical binding]; other site 381666006626 flexible hinge region; other site 381666006627 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 381666006628 putative switch regulator; other site 381666006629 non-specific DNA interactions [nucleotide binding]; other site 381666006630 DNA binding site [nucleotide binding] 381666006631 sequence specific DNA binding site [nucleotide binding]; other site 381666006632 putative cAMP binding site [chemical binding]; other site 381666006633 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 381666006634 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 381666006635 putative dimer interface [polypeptide binding]; other site 381666006636 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 381666006637 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 381666006638 BON domain; Region: BON; cl02771 381666006639 BON domain; Region: BON; cl02771 381666006640 BON domain; Region: BON; cl02771 381666006641 BON domain; Region: BON; cl02771 381666006642 BON domain; Region: BON; cl02771 381666006643 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 381666006644 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666006645 CoA-ligase; Region: Ligase_CoA; cl02894 381666006646 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666006647 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 381666006648 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 381666006649 active site 381666006650 phosphorylation site [posttranslational modification] 381666006651 intermolecular recognition site; other site 381666006652 dimerization interface [polypeptide binding]; other site 381666006653 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666006654 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666006655 active site 381666006656 phosphorylation site [posttranslational modification] 381666006657 intermolecular recognition site; other site 381666006658 dimerization interface [polypeptide binding]; other site 381666006659 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 381666006660 DNA binding residues [nucleotide binding] 381666006661 dimerization interface [polypeptide binding]; other site 381666006662 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 381666006663 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 381666006664 Ligand Binding Site [chemical binding]; other site 381666006665 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 381666006666 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666006667 Beta-Casp domain; Region: Beta-Casp; cl12567 381666006668 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 381666006669 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 381666006670 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 381666006671 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 381666006672 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 381666006673 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 381666006674 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 381666006675 DoxX; Region: DoxX; cl00976 381666006676 high affinity sulphate transporter 1; Region: sulP; TIGR00815 381666006677 Sulfate transporter family; Region: Sulfate_transp; cl15842 381666006678 Sulfate transporter family; Region: Sulfate_transp; cl15842 381666006679 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 381666006680 GMP synthase; Reviewed; Region: guaA; PRK00074 381666006681 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 381666006682 AMP/PPi binding site [chemical binding]; other site 381666006683 candidate oxyanion hole; other site 381666006684 catalytic triad [active] 381666006685 potential glutamine specificity residues [chemical binding]; other site 381666006686 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 381666006687 ATP Binding subdomain [chemical binding]; other site 381666006688 Ligand Binding sites [chemical binding]; other site 381666006689 Dimerization subdomain; other site 381666006690 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 381666006691 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; cl09108 381666006692 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 key...; Region: CBS_pair_IMPDH; cd04601 381666006693 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 the guanine...; Region: IMPDH; cd00381 381666006694 active site 381666006695 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 381666006696 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 381666006697 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 381666006698 putative coenzyme Q binding site [chemical binding]; other site 381666006699 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 381666006700 SmpB-tmRNA interface; other site 381666006701 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 381666006702 phosphoenolpyruvate synthase; Validated; Region: PRK06464 381666006703 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 381666006704 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 381666006705 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; cl09155 381666006706 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 381666006707 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 381666006708 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 381666006709 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 381666006710 RNA/DNA hybrid binding site [nucleotide binding]; other site 381666006711 active site 381666006712 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 381666006713 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 381666006714 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 381666006715 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 381666006716 active site 381666006717 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 381666006718 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 381666006719 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 381666006720 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 381666006721 trimer interface [polypeptide binding]; other site 381666006722 active site 381666006723 UDP-GlcNAc binding site [chemical binding]; other site 381666006724 lipid binding site [chemical binding]; lipid-binding site 381666006725 periplasmic chaperone; Provisional; Region: PRK10780 381666006726 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 381666006727 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 381666006728 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 381666006729 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 381666006730 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 381666006731 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 381666006732 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 381666006733 Surface antigen; Region: Bac_surface_Ag; cl03097 381666006734 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 381666006735 zinc metallopeptidase RseP; Provisional; Region: PRK10779 381666006736 active site 381666006737 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 381666006738 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 381666006739 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 381666006740 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 381666006741 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 381666006742 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 381666006743 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 381666006744 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 381666006745 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 381666006746 catalytic residue [active] 381666006747 putative FPP diphosphate binding site; other site 381666006748 putative FPP binding hydrophobic cleft; other site 381666006749 dimer interface [polypeptide binding]; other site 381666006750 putative IPP diphosphate binding site; other site 381666006751 ribosome recycling factor; Reviewed; Region: frr; PRK00083 381666006752 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 round of...; Region: RRF; cd00520 381666006753 hinge region; other site 381666006754 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 381666006755 putative nucleotide binding site [chemical binding]; other site 381666006756 uridine monophosphate binding site [chemical binding]; other site 381666006757 homohexameric interface [polypeptide binding]; other site 381666006758 elongation factor Ts; Provisional; Region: tsf; PRK09377 381666006759 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 381666006760 Elongation factor TS; Region: EF_TS; pfam00889 381666006761 Elongation factor TS; Region: EF_TS; pfam00889 381666006762 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 381666006763 rRNA interaction site [nucleotide binding]; other site 381666006764 S8 interaction site; other site 381666006765 putative laminin-1 binding site; other site 381666006766 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 381666006767 active site 381666006768 PII uridylyl-transferase; Provisional; Region: PRK03059 381666006769 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 381666006770 metal binding triad; other site 381666006771 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 381666006772 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 381666006773 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 381666006774 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 381666006775 transcription termination factor Rho; Provisional; Region: PRK12678 381666006776 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 381666006777 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 381666006778 RNA binding surface [nucleotide binding]; other site 381666006779 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 381666006780 active site 381666006781 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 381666006782 active site 381666006783 catalytic residues [active] 381666006784 metal binding site [ion binding]; metal-binding site 381666006785 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 381666006786 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 381666006787 nucleotide binding pocket [chemical binding]; other site 381666006788 K-X-D-G motif; other site 381666006789 catalytic site [active] 381666006790 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 381666006791 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 381666006792 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 381666006793 Dimer interface [polypeptide binding]; other site 381666006794 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 381666006795 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 381666006796 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 381666006797 Walker A/P-loop; other site 381666006798 ATP binding site [chemical binding]; other site 381666006799 Q-loop/lid; other site 381666006800 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 381666006801 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 381666006802 ABC transporter signature motif; other site 381666006803 Walker B; other site 381666006804 D-loop; other site 381666006805 H-loop/switch region; other site 381666006806 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 381666006807 dinuclear metal binding motif [ion binding]; other site 381666006808 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 381666006809 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 381666006810 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666006811 homodimer interface [polypeptide binding]; other site 381666006812 catalytic residue [active] 381666006813 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 381666006814 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 381666006815 trimer interface [polypeptide binding]; other site 381666006816 active site 381666006817 substrate binding site [chemical binding]; other site 381666006818 CoA binding site [chemical binding]; other site 381666006819 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 381666006820 ArsC family; Region: ArsC; pfam03960 381666006821 putative catalytic residues [active] 381666006822 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 381666006823 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 381666006824 metal binding site [ion binding]; metal-binding site 381666006825 dimer interface [polypeptide binding]; other site 381666006826 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 381666006827 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 381666006828 S-adenosylmethionine binding site [chemical binding]; other site 381666006829 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666006830 D-galactonate transporter; Region: 2A0114; TIGR00893 381666006831 putative substrate translocation pore; other site 381666006832 HipA N-terminal domain; Region: Couple_hipA; cl11853 381666006833 HipA-like N-terminal domain; Region: HipA_N; pfam07805 381666006834 HipA-like C-terminal domain; Region: HipA_C; pfam07804 381666006835 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 381666006836 non-specific DNA binding site [nucleotide binding]; other site 381666006837 salt bridge; other site 381666006838 sequence-specific DNA binding site [nucleotide binding]; other site 381666006839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666006840 NMT1-like family; Region: NMT1_2; cl15260 381666006841 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 381666006842 AMP-binding enzyme; Region: AMP-binding; cl15778 381666006843 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666006844 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666006845 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666006846 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 381666006847 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666006848 NAD(P) binding site [chemical binding]; other site 381666006849 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666006850 NMT1-like family; Region: NMT1_2; cl15260 381666006851 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666006852 Helix-turn-helix domains; Region: HTH; cl00088 381666006853 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 381666006854 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 381666006855 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 381666006856 dimer interface [polypeptide binding]; other site 381666006857 conserved gate region; other site 381666006858 putative PBP binding loops; other site 381666006859 ABC-ATPase subunit interface; other site 381666006860 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 381666006861 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 381666006862 dimer interface [polypeptide binding]; other site 381666006863 conserved gate region; other site 381666006864 putative PBP binding loops; other site 381666006865 ABC-ATPase subunit interface; other site 381666006866 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 381666006867 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666006868 Walker A/P-loop; other site 381666006869 ATP binding site [chemical binding]; other site 381666006870 Q-loop/lid; other site 381666006871 ABC transporter signature motif; other site 381666006872 Walker B; other site 381666006873 D-loop; other site 381666006874 H-loop/switch region; other site 381666006875 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666006876 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666006877 Walker A/P-loop; other site 381666006878 ATP binding site [chemical binding]; other site 381666006879 Q-loop/lid; other site 381666006880 ABC transporter signature motif; other site 381666006881 Walker B; other site 381666006882 D-loop; other site 381666006883 H-loop/switch region; other site 381666006884 amidase; Provisional; Region: PRK07042 381666006885 Amidase; Region: Amidase; cl11426 381666006886 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666006887 Helix-turn-helix domains; Region: HTH; cl00088 381666006888 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 381666006889 dimerization interface [polypeptide binding]; other site 381666006890 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 381666006891 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 381666006892 putative acyl-acceptor binding pocket; other site 381666006893 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 381666006894 active site 381666006895 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 381666006896 active site 381666006897 catalytic residues [active] 381666006898 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 381666006899 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; cl12031 381666006900 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; cl16911 381666006901 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 381666006902 putative active site [active] 381666006903 Zn binding site [ion binding]; other site 381666006904 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 381666006905 SxDxEG motif; other site 381666006906 active site 381666006907 metal binding site [ion binding]; metal-binding site 381666006908 homopentamer interface [polypeptide binding]; other site 381666006909 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 381666006910 homodimer interface [polypeptide binding]; other site 381666006911 homotetramer interface [polypeptide binding]; other site 381666006912 active site pocket [active] 381666006913 cleavage site 381666006914 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 381666006915 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 381666006916 dimer interface [polypeptide binding]; other site 381666006917 conserved gate region; other site 381666006918 putative PBP binding loops; other site 381666006919 ABC-ATPase subunit interface; other site 381666006920 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 381666006921 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 381666006922 dimer interface [polypeptide binding]; other site 381666006923 conserved gate region; other site 381666006924 putative PBP binding loops; other site 381666006925 ABC-ATPase subunit interface; other site 381666006926 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 381666006927 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 381666006928 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 381666006929 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666006930 Walker A/P-loop; other site 381666006931 ATP binding site [chemical binding]; other site 381666006932 Q-loop/lid; other site 381666006933 ABC transporter signature motif; other site 381666006934 Walker B; other site 381666006935 D-loop; other site 381666006936 H-loop/switch region; other site 381666006937 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666006938 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666006939 Walker A/P-loop; other site 381666006940 ATP binding site [chemical binding]; other site 381666006941 Q-loop/lid; other site 381666006942 ABC transporter signature motif; other site 381666006943 Walker B; other site 381666006944 D-loop; other site 381666006945 H-loop/switch region; other site 381666006946 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666006947 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 381666006948 catalytic nucleophile [active] 381666006949 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 381666006950 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 381666006951 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 381666006952 putative active site [active] 381666006953 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 381666006954 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 381666006955 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 381666006956 ABC transporter; Region: ABC_tran_2; pfam12848 381666006957 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 381666006958 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; cl16911 381666006959 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 381666006960 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666006961 Bacterial sugar transferase; Region: Bac_transf; cl00939 381666006962 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 381666006963 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666006964 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666006965 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 381666006966 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 381666006967 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666006968 DNA repair protein RadA; Provisional; Region: PRK11823 381666006969 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 381666006970 Walker A motif/ATP binding site; other site 381666006971 ATP binding site [chemical binding]; other site 381666006972 Walker B motif; other site 381666006973 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 381666006974 alanine racemase; Reviewed; Region: dadX; PRK03646 381666006975 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 381666006976 active site 381666006977 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 381666006978 substrate binding site [chemical binding]; other site 381666006979 catalytic residues [active] 381666006980 dimer interface [polypeptide binding]; other site 381666006981 lysophospholipid transporter LplT; Provisional; Region: PRK11195 381666006982 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 381666006983 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 381666006984 Fe-S cluster binding site [ion binding]; other site 381666006985 active site 381666006986 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 381666006987 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666006988 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 381666006989 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 381666006990 acyl-CoA binding pocket [chemical binding]; other site 381666006991 CoA binding site [chemical binding]; other site 381666006992 putative transporter; Provisional; Region: PRK10504 381666006993 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666006994 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666006995 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 381666006996 putative hydrophobic ligand binding site [chemical binding]; other site 381666006997 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 381666006998 active site 381666006999 oxyanion hole [active] 381666007000 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666007001 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 381666007002 PemK-like protein; Region: PemK; cl00995 381666007003 NMT1-like family; Region: NMT1_2; cl15260 381666007004 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666007005 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 381666007006 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666007007 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 381666007008 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 381666007009 active site pocket [active] 381666007010 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666007011 NMT1-like family; Region: NMT1_2; cl15260 381666007012 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 381666007013 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 381666007014 MOFRL family; Region: MOFRL; pfam05161 381666007015 tartrate dehydrogenase; Provisional; Region: PRK08194 381666007016 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 381666007017 transcriptional activator TtdR; Provisional; Region: PRK09801 381666007018 Helix-turn-helix domains; Region: HTH; cl00088 381666007019 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 381666007020 putative effector binding pocket; other site 381666007021 putative dimerization interface [polypeptide binding]; other site 381666007022 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666007023 active site 381666007024 phosphorylation site [posttranslational modification] 381666007025 intermolecular recognition site; other site 381666007026 dimerization interface [polypeptide binding]; other site 381666007027 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 381666007028 DNA binding residues [nucleotide binding] 381666007029 dimerization interface [polypeptide binding]; other site 381666007030 MASE1; Region: MASE1; pfam05231 381666007031 Histidine kinase; Region: HisKA_3; pfam07730 381666007032 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 381666007033 ATP binding site [chemical binding]; other site 381666007034 Mg2+ binding site [ion binding]; other site 381666007035 G-X-G motif; other site 381666007036 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666007037 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666007038 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 381666007039 substrate binding site [chemical binding]; other site 381666007040 oxyanion hole (OAH) forming residues; other site 381666007041 trimer interface [polypeptide binding]; other site 381666007042 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666007043 Helix-turn-helix domains; Region: HTH; cl00088 381666007044 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 381666007045 dimerization interface [polypeptide binding]; other site 381666007046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666007047 NMT1-like family; Region: NMT1_2; cl15260 381666007048 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 381666007049 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 381666007050 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666007051 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666007052 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 381666007053 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 381666007054 carboxyltransferase (CT) interaction site; other site 381666007055 biotinylation site [posttranslational modification]; other site 381666007056 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666007057 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666007058 active site 381666007059 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 381666007060 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 381666007061 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666007062 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666007063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666007064 NMT1-like family; Region: NMT1_2; cl15260 381666007065 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 381666007066 DUF35 OB-fold domain; Region: DUF35; pfam01796 381666007067 thiolase; Provisional; Region: PRK06158 381666007068 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 381666007069 active site 381666007070 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666007071 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666007072 active site 381666007073 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 381666007074 AMP-binding enzyme; Region: AMP-binding; cl15778 381666007075 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666007076 enoyl-CoA hydratase; Region: PLN02864 381666007077 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 381666007078 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 381666007079 dimer interaction site [polypeptide binding]; other site 381666007080 substrate-binding tunnel; other site 381666007081 active site 381666007082 catalytic site [active] 381666007083 substrate binding site [chemical binding]; other site 381666007084 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666007085 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666007086 NAD(P) binding site [chemical binding]; other site 381666007087 active site 381666007088 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666007089 NMT1-like family; Region: NMT1_2; cl15260 381666007090 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 381666007091 Helix-turn-helix domains; Region: HTH; cl00088 381666007092 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666007093 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 381666007094 active site 381666007095 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; cl15357 381666007096 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 381666007097 Ferritin-like domain; Region: Ferritin; pfam00210 381666007098 dinuclear metal binding motif [ion binding]; other site 381666007099 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 381666007100 Ligand Binding Site [chemical binding]; other site 381666007101 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666007102 NMT1-like family; Region: NMT1_2; cl15260 381666007103 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; cl12031 381666007104 Esterase/lipase [General function prediction only]; Region: COG1647 381666007105 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666007106 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666007107 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666007108 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 381666007109 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 381666007110 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666007111 active site 381666007112 phosphorylation site [posttranslational modification] 381666007113 intermolecular recognition site; other site 381666007114 dimerization interface [polypeptide binding]; other site 381666007115 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 381666007116 DNA binding site [nucleotide binding] 381666007117 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 381666007118 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 381666007119 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 381666007120 dimer interface [polypeptide binding]; other site 381666007121 phosphorylation site [posttranslational modification] 381666007122 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 381666007123 ATP binding site [chemical binding]; other site 381666007124 Mg2+ binding site [ion binding]; other site 381666007125 G-X-G motif; other site 381666007126 Helix-turn-helix domains; Region: HTH; cl00088 381666007127 LysR family transcriptional regulator; Provisional; Region: PRK14997 381666007128 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 381666007129 putative effector binding pocket; other site 381666007130 putative dimerization interface [polypeptide binding]; other site 381666007131 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 381666007132 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 381666007133 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 381666007134 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 381666007135 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 381666007136 NAD(P) binding site [chemical binding]; other site 381666007137 homotetramer interface [polypeptide binding]; other site 381666007138 homodimer interface [polypeptide binding]; other site 381666007139 active site 381666007140 Phasin protein; Region: Phasin_2; cl11491 381666007141 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 381666007142 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 381666007143 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 381666007144 YCII-related domain; Region: YCII; cl00999 381666007145 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 381666007146 putative DNA binding site [nucleotide binding]; other site 381666007147 putative Zn2+ binding site [ion binding]; other site 381666007148 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 381666007149 Membrane transport protein; Region: Mem_trans; cl09117 381666007150 Low molecular weight phosphatase family; Region: LMWPc; cd00115 381666007151 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 381666007152 active site 381666007153 Low molecular weight phosphatase family; Region: LMWPc; cd00115 381666007154 active site 381666007155 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 381666007156 putative metal binding site [ion binding]; other site 381666007157 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 381666007158 putative DNA binding site [nucleotide binding]; other site 381666007159 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 381666007160 Alkaline phosphatase homologues; Region: alkPPc; smart00098 381666007161 active site 381666007162 dimer interface [polypeptide binding]; other site 381666007163 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 381666007164 dimer interface [polypeptide binding]; other site 381666007165 Alkaline phosphatase homologues; Region: alkPPc; smart00098 381666007166 active site 381666007167 Outer membrane efflux protein; Region: OEP; pfam02321 381666007168 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 381666007169 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666007170 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 381666007171 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 381666007172 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 381666007173 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 381666007174 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 381666007175 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 381666007176 elongation factor P; Validated; Region: PRK00529 381666007177 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 381666007178 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 381666007179 RNA binding site [nucleotide binding]; other site 381666007180 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 381666007181 RNA binding site [nucleotide binding]; other site 381666007182 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 381666007183 hydrogenase 4 subunit B; Validated; Region: PRK06521 381666007184 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 381666007185 NADH dehydrogenase; Region: NADHdh; cl00469 381666007186 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 381666007187 hydrogenase 4 subunit F; Validated; Region: PRK06458 381666007188 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 381666007189 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 381666007190 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 381666007191 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 381666007192 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 381666007193 dimerization domain swap beta strand [polypeptide binding]; other site 381666007194 regulatory protein interface [polypeptide binding]; other site 381666007195 active site 381666007196 regulatory phosphorylation site [posttranslational modification]; other site 381666007197 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 381666007198 S-adenosylmethionine binding site [chemical binding]; other site 381666007199 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 381666007200 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 381666007201 Flagellin N-methylase; Region: FliB; cl00497 381666007202 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 381666007203 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 381666007204 dimerization interface [polypeptide binding]; other site 381666007205 putative DNA binding site [nucleotide binding]; other site 381666007206 putative Zn2+ binding site [ion binding]; other site 381666007207 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 381666007208 active site residue [active] 381666007209 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666007210 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666007211 putative substrate translocation pore; other site 381666007212 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 381666007213 tetramer interface [polypeptide binding]; other site 381666007214 active site 381666007215 Mg2+/Mn2+ binding site [ion binding]; other site 381666007216 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 381666007217 transcriptional regulator EutR; Provisional; Region: PRK10130 381666007218 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666007219 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666007220 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; cl12031 381666007221 Isochorismatase family; Region: Isochorismatase; pfam00857 381666007222 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 381666007223 catalytic triad [active] 381666007224 conserved cis-peptide bond; other site 381666007225 Dienelactone hydrolase family; Region: DLH; pfam01738 381666007226 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 381666007227 S-adenosylmethionine binding site [chemical binding]; other site 381666007228 malate synthase A; Region: malate_syn_A; TIGR01344 381666007229 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 381666007230 active site 381666007231 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 381666007232 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 381666007233 Helix-turn-helix domains; Region: HTH; cl00088 381666007234 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 381666007235 putative effector binding pocket; other site 381666007236 dimerization interface [polypeptide binding]; other site 381666007237 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 381666007238 Ligand Binding Site [chemical binding]; other site 381666007239 Peptidase family M48; Region: Peptidase_M48; cl12018 381666007240 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 381666007241 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 381666007242 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 381666007243 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 381666007244 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 381666007245 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 381666007246 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 381666007247 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 381666007248 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 381666007249 tetramer interface [polypeptide binding]; other site 381666007250 active site 381666007251 Mg2+/Mn2+ binding site [ion binding]; other site 381666007252 short chain dehydrogenase; Validated; Region: PRK05855 381666007253 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; cl12031 381666007254 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 381666007255 putative active site pocket [active] 381666007256 dimerization interface [polypeptide binding]; other site 381666007257 putative catalytic residue [active] 381666007258 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 381666007259 thiamine pyrophosphate protein; Validated; Region: PRK08199 381666007260 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666007261 PYR/PP interface [polypeptide binding]; other site 381666007262 dimer interface [polypeptide binding]; other site 381666007263 TPP binding site [chemical binding]; other site 381666007264 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 381666007265 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 381666007266 TPP-binding site [chemical binding]; other site 381666007267 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666007268 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 381666007269 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666007270 active site 381666007271 phosphorylation site [posttranslational modification] 381666007272 intermolecular recognition site; other site 381666007273 dimerization interface [polypeptide binding]; other site 381666007274 LytTr DNA-binding domain; Region: LytTR; cl04498 381666007275 Histidine kinase; Region: His_kinase; pfam06580 381666007276 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 381666007277 ATP binding site [chemical binding]; other site 381666007278 Mg2+ binding site [ion binding]; other site 381666007279 G-X-G motif; other site 381666007280 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 381666007281 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 381666007282 substrate binding site [chemical binding]; other site 381666007283 dimerization interface [polypeptide binding]; other site 381666007284 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 381666007285 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 381666007286 Walker A/P-loop; other site 381666007287 ATP binding site [chemical binding]; other site 381666007288 Q-loop/lid; other site 381666007289 ABC transporter signature motif; other site 381666007290 Walker B; other site 381666007291 D-loop; other site 381666007292 H-loop/switch region; other site 381666007293 TOBE-like domain; Region: TOBE_3; pfam12857 381666007294 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 381666007295 dimer interface [polypeptide binding]; other site 381666007296 conserved gate region; other site 381666007297 putative PBP binding loops; other site 381666007298 ABC-ATPase subunit interface; other site 381666007299 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 381666007300 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 381666007301 dimer interface [polypeptide binding]; other site 381666007302 conserved gate region; other site 381666007303 putative PBP binding loops; other site 381666007304 ABC-ATPase subunit interface; other site 381666007305 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; cl12031 381666007306 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 381666007307 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 381666007308 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 381666007309 Walker A/P-loop; other site 381666007310 ATP binding site [chemical binding]; other site 381666007311 Q-loop/lid; other site 381666007312 ABC transporter signature motif; other site 381666007313 Walker B; other site 381666007314 D-loop; other site 381666007315 H-loop/switch region; other site 381666007316 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 381666007317 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 381666007318 putative PBP binding loops; other site 381666007319 dimer interface [polypeptide binding]; other site 381666007320 ABC-ATPase subunit interface; other site 381666007321 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 381666007322 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 381666007323 active site 381666007324 dimer interface [polypeptide binding]; other site 381666007325 non-prolyl cis peptide bond; other site 381666007326 insertion regions; other site 381666007327 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 381666007328 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 381666007329 substrate binding pocket [chemical binding]; other site 381666007330 membrane-bound complex binding site; other site 381666007331 hinge residues; other site 381666007332 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 381666007333 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 381666007334 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 381666007335 Ferritin-like domain; Region: Ferritin; pfam00210 381666007336 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 381666007337 dinuclear metal binding motif [ion binding]; other site 381666007338 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 381666007339 Clp amino terminal domain; Region: Clp_N; pfam02861 381666007340 Clp amino terminal domain; Region: Clp_N; pfam02861 381666007341 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 381666007342 Walker A motif; other site 381666007343 ATP binding site [chemical binding]; other site 381666007344 Walker B motif; other site 381666007345 arginine finger; other site 381666007346 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 381666007347 Walker A motif; other site 381666007348 ATP binding site [chemical binding]; other site 381666007349 Walker B motif; other site 381666007350 arginine finger; other site 381666007351 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 381666007352 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 381666007353 dimer interaction site [polypeptide binding]; other site 381666007354 substrate-binding tunnel; other site 381666007355 active site 381666007356 catalytic site [active] 381666007357 substrate binding site [chemical binding]; other site 381666007358 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 381666007359 dimer interaction site [polypeptide binding]; other site 381666007360 substrate-binding tunnel; other site 381666007361 active site 381666007362 catalytic site [active] 381666007363 substrate binding site [chemical binding]; other site 381666007364 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 381666007365 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666007366 AMP-binding enzyme; Region: AMP-binding; cl15778 381666007367 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666007368 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 381666007369 TM-ABC transporter signature motif; other site 381666007370 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 381666007371 TM-ABC transporter signature motif; other site 381666007372 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666007373 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 381666007374 Walker A/P-loop; other site 381666007375 ATP binding site [chemical binding]; other site 381666007376 Q-loop/lid; other site 381666007377 ABC transporter signature motif; other site 381666007378 Walker B; other site 381666007379 D-loop; other site 381666007380 H-loop/switch region; other site 381666007381 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666007382 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 381666007383 Walker A/P-loop; other site 381666007384 ATP binding site [chemical binding]; other site 381666007385 Q-loop/lid; other site 381666007386 ABC transporter signature motif; other site 381666007387 Walker B; other site 381666007388 D-loop; other site 381666007389 H-loop/switch region; other site 381666007390 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666007391 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 381666007392 putative ligand binding site [chemical binding]; other site 381666007393 enoyl-CoA hydratase; Provisional; Region: PRK06688 381666007394 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 381666007395 substrate binding site [chemical binding]; other site 381666007396 oxyanion hole (OAH) forming residues; other site 381666007397 trimer interface [polypeptide binding]; other site 381666007398 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 381666007399 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666007400 Helix-turn-helix domains; Region: HTH; cl00088 381666007401 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666007402 CrcB-like protein; Region: CRCB; cl09114 381666007403 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 381666007404 MoaE homodimer interface [polypeptide binding]; other site 381666007405 MoaD interaction [polypeptide binding]; other site 381666007406 active site residues [active] 381666007407 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 381666007408 MoaE interaction surface [polypeptide binding]; other site 381666007409 MoeB interaction surface [polypeptide binding]; other site 381666007410 thiocarboxylated glycine; other site 381666007411 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 381666007412 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 381666007413 dimer interface [polypeptide binding]; other site 381666007414 putative functional site; other site 381666007415 putative MPT binding site; other site 381666007416 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 381666007417 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, cyanobacteria; Region: Thr-synth_2; cd01560 381666007418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666007419 catalytic residue [active] 381666007420 homoserine dehydrogenase; Provisional; Region: PRK06349 381666007421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666007422 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 381666007423 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 381666007424 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 381666007425 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 381666007426 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666007427 homodimer interface [polypeptide binding]; other site 381666007428 catalytic residue [active] 381666007429 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 381666007430 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 381666007431 catalytic triad [active] 381666007432 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 381666007433 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 381666007434 putative active site [active] 381666007435 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666007436 NlpC/P60 family; Region: NLPC_P60; cl11438 381666007437 Phosphate transporter family; Region: PHO4; cl00396 381666007438 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 381666007439 replicative DNA helicase; Provisional; Region: PRK07004 381666007440 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 381666007441 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 381666007442 Walker A motif; other site 381666007443 ATP binding site [chemical binding]; other site 381666007444 Walker B motif; other site 381666007445 DNA binding loops [nucleotide binding] 381666007446 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 381666007447 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 381666007448 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 381666007449 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 381666007450 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 381666007451 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 381666007452 active site 381666007453 homodimer interface [polypeptide binding]; other site 381666007454 homotetramer interface [polypeptide binding]; other site 381666007455 LexA repressor; Validated; Region: PRK00215 381666007456 Helix-turn-helix domains; Region: HTH; cl00088 381666007457 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 381666007458 Catalytic site [active] 381666007459 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 381666007460 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 381666007461 FMN binding site [chemical binding]; other site 381666007462 active site 381666007463 catalytic residues [active] 381666007464 substrate binding site [chemical binding]; other site 381666007465 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 381666007466 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 381666007467 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 381666007468 substrate binding site [chemical binding]; other site 381666007469 oxyanion hole (OAH) forming residues; other site 381666007470 trimer interface [polypeptide binding]; other site 381666007471 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 381666007472 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 381666007473 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 381666007474 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 381666007475 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 381666007476 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666007477 dimer interface [polypeptide binding]; other site 381666007478 putative CheW interface [polypeptide binding]; other site 381666007479 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 381666007480 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 381666007481 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 381666007482 G1 box; other site 381666007483 putative GEF interaction site [polypeptide binding]; other site 381666007484 GTP/Mg2+ binding site [chemical binding]; other site 381666007485 Switch I region; other site 381666007486 G2 box; other site 381666007487 G3 box; other site 381666007488 Switch II region; other site 381666007489 G4 box; other site 381666007490 G5 box; other site 381666007491 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 381666007492 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 381666007493 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666007494 Helix-turn-helix domains; Region: HTH; cl00088 381666007495 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666007496 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 381666007497 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666007498 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666007499 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 381666007500 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666007501 putative substrate translocation pore; other site 381666007502 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666007503 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666007504 Helix-turn-helix domains; Region: HTH; cl00088 381666007505 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666007506 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 381666007507 active site pocket [active] 381666007508 oxyanion hole [active] 381666007509 catalytic triad [active] 381666007510 active site nucleophile [active] 381666007511 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 381666007512 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666007513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666007514 NMT1-like family; Region: NMT1_2; cl15260 381666007515 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 381666007516 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 381666007517 RNA binding site [nucleotide binding]; other site 381666007518 active site 381666007519 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 381666007520 Ribosome-binding factor A; Region: RBFA; cl00542 381666007521 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 381666007522 translation initiation factor IF-2; Region: IF-2; TIGR00487 381666007523 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 381666007524 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 381666007525 G1 box; other site 381666007526 putative GEF interaction site [polypeptide binding]; other site 381666007527 GTP/Mg2+ binding site [chemical binding]; other site 381666007528 Switch I region; other site 381666007529 G2 box; other site 381666007530 G3 box; other site 381666007531 Switch II region; other site 381666007532 G4 box; other site 381666007533 G5 box; other site 381666007534 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 381666007535 Translation-initiation factor 2; Region: IF-2; pfam11987 381666007536 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 381666007537 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 381666007538 NusA N-terminal domain; Region: NusA_N; pfam08529 381666007539 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 381666007540 RNA binding site [nucleotide binding]; other site 381666007541 homodimer interface [polypeptide binding]; other site 381666007542 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 381666007543 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 381666007544 G-X-X-G motif; other site 381666007545 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 381666007546 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 381666007547 ribosome maturation protein RimP; Reviewed; Region: PRK00092 381666007548 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 381666007549 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 381666007550 Sm1 motif; other site 381666007551 predicted subunit interaction site [polypeptide binding]; other site 381666007552 RNA binding pocket [nucleotide binding]; other site 381666007553 Sm2 motif; other site 381666007554 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 381666007555 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 381666007556 RNA binding surface [nucleotide binding]; other site 381666007557 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 381666007558 probable active site [active] 381666007559 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 381666007560 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 381666007561 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 381666007562 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 381666007563 ligand binding site [chemical binding]; other site 381666007564 flexible hinge region; other site 381666007565 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 381666007566 putative switch regulator; other site 381666007567 non-specific DNA interactions [nucleotide binding]; other site 381666007568 DNA binding site [nucleotide binding] 381666007569 sequence specific DNA binding site [nucleotide binding]; other site 381666007570 putative cAMP binding site [chemical binding]; other site 381666007571 FixH; Region: FixH; cl01254 381666007572 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 381666007573 4Fe-4S binding domain; Region: Fer4_5; pfam12801 381666007574 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 381666007575 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 381666007576 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 381666007577 Cytochrome c; Region: Cytochrom_C; cl11414 381666007578 Cytochrome c; Region: Cytochrom_C; cl11414 381666007579 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 381666007580 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 381666007581 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 381666007582 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 381666007583 Low-spin heme binding site [chemical binding]; other site 381666007584 Putative water exit pathway; other site 381666007585 Binuclear center (active site) [active] 381666007586 Putative proton exit pathway; other site 381666007587 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 381666007588 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 381666007589 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 381666007590 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 381666007591 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 381666007592 Predicted ATPase [General function prediction only]; Region: COG1485 381666007593 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 381666007594 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666007595 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 381666007596 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 381666007597 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 381666007598 E3 interaction surface; other site 381666007599 lipoyl attachment site [posttranslational modification]; other site 381666007600 e3 binding domain; Region: E3_binding; pfam02817 381666007601 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 381666007602 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 381666007603 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 381666007604 TPP-binding site [chemical binding]; other site 381666007605 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 381666007606 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 381666007607 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 381666007608 active site 381666007609 catalytic site [active] 381666007610 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 381666007611 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 381666007612 Walker A/P-loop; other site 381666007613 ATP binding site [chemical binding]; other site 381666007614 Q-loop/lid; other site 381666007615 ABC transporter signature motif; other site 381666007616 Walker B; other site 381666007617 D-loop; other site 381666007618 H-loop/switch region; other site 381666007619 TOBE domain; Region: TOBE_2; cl01440 381666007620 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 381666007621 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 381666007622 dimer interface [polypeptide binding]; other site 381666007623 conserved gate region; other site 381666007624 putative PBP binding loops; other site 381666007625 ABC-ATPase subunit interface; other site 381666007626 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 381666007627 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 381666007628 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 381666007629 dimer interface [polypeptide binding]; other site 381666007630 ABC-ATPase subunit interface; other site 381666007631 putative PBP binding loops; other site 381666007632 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 381666007633 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 381666007634 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 381666007635 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 381666007636 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666007637 active site 381666007638 phosphorylation site [posttranslational modification] 381666007639 intermolecular recognition site; other site 381666007640 dimerization interface [polypeptide binding]; other site 381666007641 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 381666007642 Walker A motif; other site 381666007643 ATP binding site [chemical binding]; other site 381666007644 Walker B motif; other site 381666007645 arginine finger; other site 381666007646 Helix-turn-helix domains; Region: HTH; cl00088 381666007647 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 381666007648 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 381666007649 dimer interface [polypeptide binding]; other site 381666007650 phosphorylation site [posttranslational modification] 381666007651 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 381666007652 ATP binding site [chemical binding]; other site 381666007653 Mg2+ binding site [ion binding]; other site 381666007654 G-X-G motif; other site 381666007655 glutamine synthetase; Provisional; Region: glnA; PRK09469 381666007656 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 381666007657 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 381666007658 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 381666007659 active site residue [active] 381666007660 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 381666007661 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 381666007662 putative MPT binding site; other site 381666007663 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 381666007664 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 381666007665 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 381666007666 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 381666007667 NodB motif; other site 381666007668 active site 381666007669 catalytic site [active] 381666007670 metal binding site [ion binding]; metal-binding site 381666007671 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 381666007672 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 381666007673 structural tetrad; other site 381666007674 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 381666007675 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 381666007676 ATP binding site [chemical binding]; other site 381666007677 putative Mg++ binding site [ion binding]; other site 381666007678 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666007679 Helicase associated domain (HA2); Region: HA2; cl04503 381666007680 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 381666007681 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 381666007682 N-acetylglutamate synthase; Validated; Region: PRK05279 381666007683 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 381666007684 putative feedback inhibition sensing region; other site 381666007685 putative nucleotide binding site [chemical binding]; other site 381666007686 putative substrate binding site [chemical binding]; other site 381666007687 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666007688 Coenzyme A binding pocket [chemical binding]; other site 381666007689 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 381666007690 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 381666007691 tetramer (dimer of dimers) interface [polypeptide binding]; other site 381666007692 active site 381666007693 dimer interface [polypeptide binding]; other site 381666007694 transaldolase-like protein; Provisional; Region: PTZ00411 381666007695 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 381666007696 active site 381666007697 dimer interface [polypeptide binding]; other site 381666007698 catalytic residue [active] 381666007699 NAD-dependent deacetylase; Provisional; Region: PRK00481 381666007700 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 381666007701 NAD+ binding site [chemical binding]; other site 381666007702 substrate binding site [chemical binding]; other site 381666007703 Zn binding site [ion binding]; other site 381666007704 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 381666007705 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 381666007706 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 381666007707 ribonuclease R; Region: RNase_R; TIGR02063 381666007708 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 381666007709 RNB domain; Region: RNB; pfam00773 381666007710 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 play an important...; Region: S1_RNase_R; cd04471 381666007711 RNA binding site [nucleotide binding]; other site 381666007712 Rrf2 family protein; Region: rrf2_super; TIGR00738 381666007713 Helix-turn-helix domains; Region: HTH; cl00088 381666007714 Helix-turn-helix domains; Region: HTH; cl00088 381666007715 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 381666007716 NADH(P)-binding; Region: NAD_binding_10; pfam13460 381666007717 NAD binding site [chemical binding]; other site 381666007718 substrate binding site [chemical binding]; other site 381666007719 putative active site [active] 381666007720 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666007721 active site 381666007722 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 381666007723 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 381666007724 GDP-binding site [chemical binding]; other site 381666007725 ACT binding site; other site 381666007726 IMP binding site; other site 381666007727 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 381666007728 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 ATP-dependent...; Region: HisRS-like_core; cd00773 381666007729 dimer interface [polypeptide binding]; other site 381666007730 motif 1; other site 381666007731 active site 381666007732 motif 2; other site 381666007733 motif 3; other site 381666007734 HflC protein; Region: hflC; TIGR01932 381666007735 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 381666007736 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 381666007737 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 381666007738 HflK protein; Region: hflK; TIGR01933 381666007739 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 381666007740 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 381666007741 HflX GTPase family; Region: HflX; cd01878 381666007742 G1 box; other site 381666007743 GTP/Mg2+ binding site [chemical binding]; other site 381666007744 Switch I region; other site 381666007745 G2 box; other site 381666007746 G3 box; other site 381666007747 Switch II region; other site 381666007748 G4 box; other site 381666007749 G5 box; other site 381666007750 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 381666007751 Sm1 motif; other site 381666007752 intra - hexamer interaction site; other site 381666007753 inter - hexamer interaction site [polypeptide binding]; other site 381666007754 nucleotide binding pocket [chemical binding]; other site 381666007755 Sm2 motif; other site 381666007756 GTP-binding protein Der; Reviewed; Region: PRK00093 381666007757 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 381666007758 G1 box; other site 381666007759 GTP/Mg2+ binding site [chemical binding]; other site 381666007760 Switch I region; other site 381666007761 G2 box; other site 381666007762 Switch II region; other site 381666007763 G3 box; other site 381666007764 G4 box; other site 381666007765 G5 box; other site 381666007766 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 381666007767 G1 box; other site 381666007768 GTP/Mg2+ binding site [chemical binding]; other site 381666007769 Switch I region; other site 381666007770 G2 box; other site 381666007771 G3 box; other site 381666007772 Switch II region; other site 381666007773 G4 box; other site 381666007774 G5 box; other site 381666007775 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 381666007776 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 381666007777 Trp docking motif [polypeptide binding]; other site 381666007778 active site 381666007779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 381666007780 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 381666007781 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 381666007782 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 ATP-dependent...; Region: HisRS-like_core; cd00773 381666007783 dimer interface [polypeptide binding]; other site 381666007784 motif 1; other site 381666007785 active site 381666007786 motif 2; other site 381666007787 motif 3; other site 381666007788 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 381666007789 anticodon binding site; other site 381666007790 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 381666007791 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 381666007792 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 381666007793 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 381666007794 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 381666007795 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 381666007796 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 381666007797 binding surface 381666007798 TPR motif; other site 381666007799 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 381666007800 binding surface 381666007801 TPR motif; other site 381666007802 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 381666007803 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 381666007804 FeS/SAM binding site; other site 381666007805 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 381666007806 active site 381666007807 multimer interface [polypeptide binding]; other site 381666007808 YccA-like proteins; Region: YccA_like; cd10433 381666007809 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 381666007810 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; cl16911 381666007811 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 381666007812 S-adenosylmethionine binding site [chemical binding]; other site 381666007813 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 381666007814 putative catalytic site [active] 381666007815 putative metal binding site [ion binding]; other site 381666007816 putative phosphate binding site [ion binding]; other site 381666007817 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 381666007818 active site 381666007819 catalytic site [active] 381666007820 substrate binding site [chemical binding]; other site 381666007821 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 381666007822 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 381666007823 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 381666007824 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666007825 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 381666007826 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 381666007827 DNA binding residues [nucleotide binding] 381666007828 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 381666007829 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 381666007830 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 381666007831 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; cl16911 381666007832 Survival protein SurE; Region: SurE; cl00448 381666007833 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666007834 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 381666007835 NAD(P) binding site [chemical binding]; other site 381666007836 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 381666007837 trimer interface [polypeptide binding]; other site 381666007838 eyelet of channel; other site 381666007839 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 381666007840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666007841 active site 381666007842 phosphorylation site [posttranslational modification] 381666007843 intermolecular recognition site; other site 381666007844 dimerization interface [polypeptide binding]; other site 381666007845 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 381666007846 DNA binding site [nucleotide binding] 381666007847 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 381666007848 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 381666007849 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 381666007850 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 381666007851 dimer interface [polypeptide binding]; other site 381666007852 phosphorylation site [posttranslational modification] 381666007853 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 381666007854 ATP binding site [chemical binding]; other site 381666007855 Mg2+ binding site [ion binding]; other site 381666007856 G-X-G motif; other site 381666007857 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 381666007858 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 381666007859 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 381666007860 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 381666007861 Walker A/P-loop; other site 381666007862 ATP binding site [chemical binding]; other site 381666007863 Q-loop/lid; other site 381666007864 ABC transporter signature motif; other site 381666007865 Walker B; other site 381666007866 D-loop; other site 381666007867 H-loop/switch region; other site 381666007868 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 381666007869 NMT1-like family; Region: NMT1_2; cl15260 381666007870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666007871 NMT1-like family; Region: NMT1_2; cl15260 381666007872 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 381666007873 active site 381666007874 catalytic residues [active] 381666007875 metal binding site [ion binding]; metal-binding site 381666007876 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666007877 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666007878 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666007879 Helix-turn-helix domains; Region: HTH; cl00088 381666007880 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 381666007881 putative dimerization interface [polypeptide binding]; other site 381666007882 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 381666007883 recombination protein RecR; Reviewed; Region: recR; PRK00076 381666007884 RecR protein; Region: RecR; pfam02132 381666007885 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 381666007886 putative active site [active] 381666007887 putative metal-binding site [ion binding]; other site 381666007888 tetramer interface [polypeptide binding]; other site 381666007889 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 381666007890 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 381666007891 Walker A motif; other site 381666007892 ATP binding site [chemical binding]; other site 381666007893 Walker B motif; other site 381666007894 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666007895 arginine finger; other site 381666007896 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 381666007897 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 381666007898 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 381666007899 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 381666007900 active site 381666007901 dimer interface [polypeptide binding]; other site 381666007902 effector binding site; other site 381666007903 Cys-rich peptide, TIGR04165 family; Region: methano_modCys 381666007904 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 381666007905 Family description; Region: UvrD_C_2; cl15862 381666007906 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 381666007907 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 381666007908 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 381666007909 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 381666007910 catalytic residues [active] 381666007911 transcription termination factor Rho; Provisional; Region: rho; PRK09376 381666007912 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 381666007913 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 381666007914 RNA binding site [nucleotide binding]; other site 381666007915 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 381666007916 multimer interface [polypeptide binding]; other site 381666007917 Walker A motif; other site 381666007918 ATP binding site [chemical binding]; other site 381666007919 Walker B motif; other site 381666007920 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 381666007921 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 381666007922 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 381666007923 multidrug efflux protein; Reviewed; Region: PRK01766 381666007924 MatE; Region: MatE; cl10513 381666007925 MatE; Region: MatE; cl10513 381666007926 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 381666007927 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 381666007928 HIGH motif; other site 381666007929 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 381666007930 active site 381666007931 KMSKS motif; other site 381666007932 hypothetical protein; Provisional; Region: PRK10279 381666007933 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 381666007934 nucleophile elbow; other site 381666007935 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 381666007936 NlpC/P60 family; Region: NLPC_P60; cl11438 381666007937 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 381666007938 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666007939 Walker A/P-loop; other site 381666007940 ATP binding site [chemical binding]; other site 381666007941 Q-loop/lid; other site 381666007942 ABC transporter signature motif; other site 381666007943 Walker B; other site 381666007944 D-loop; other site 381666007945 H-loop/switch region; other site 381666007946 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666007947 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666007948 Walker A/P-loop; other site 381666007949 ATP binding site [chemical binding]; other site 381666007950 Q-loop/lid; other site 381666007951 ABC transporter signature motif; other site 381666007952 Walker B; other site 381666007953 D-loop; other site 381666007954 H-loop/switch region; other site 381666007955 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666007956 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 381666007957 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 381666007958 dimer interface [polypeptide binding]; other site 381666007959 conserved gate region; other site 381666007960 putative PBP binding loops; other site 381666007961 ABC-ATPase subunit interface; other site 381666007962 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 381666007963 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 381666007964 dimer interface [polypeptide binding]; other site 381666007965 conserved gate region; other site 381666007966 putative PBP binding loops; other site 381666007967 ABC-ATPase subunit interface; other site 381666007968 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 381666007969 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 381666007970 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 381666007971 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 381666007972 NAD binding site [chemical binding]; other site 381666007973 homotetramer interface [polypeptide binding]; other site 381666007974 homodimer interface [polypeptide binding]; other site 381666007975 substrate binding site [chemical binding]; other site 381666007976 active site 381666007977 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666007978 MFS transport protein AraJ; Provisional; Region: PRK10091 381666007979 putative substrate translocation pore; other site 381666007980 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 381666007981 Ion channel; Region: Ion_trans_2; cl11596 381666007982 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 381666007983 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 381666007984 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666007985 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666007986 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666007987 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 381666007988 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 381666007989 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 381666007990 PrpF protein; Region: PrpF; pfam04303 381666007991 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666007992 NMT1-like family; Region: NMT1_2; cl15260 381666007993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666007994 NMT1-like family; Region: NMT1_2; cl15260 381666007995 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666007996 Helix-turn-helix domains; Region: HTH; cl00088 381666007997 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 381666007998 putative dimerization interface [polypeptide binding]; other site 381666007999 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 381666008000 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 381666008001 tetramer interface [polypeptide binding]; other site 381666008002 active site 381666008003 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666008004 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666008005 Uncharacterized conserved protein [Function unknown]; Region: COG3777 381666008006 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 381666008007 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 381666008008 active site 2 [active] 381666008009 active site 1 [active] 381666008010 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 381666008011 trimer interface [polypeptide binding]; other site 381666008012 eyelet of channel; other site 381666008013 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666008014 metal binding site [ion binding]; metal-binding site 381666008015 active site 381666008016 I-site; other site 381666008017 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 381666008018 active site 381666008019 catalytic site [active] 381666008020 substrate binding site [chemical binding]; other site 381666008021 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 381666008022 rRNA binding site [nucleotide binding]; other site 381666008023 predicted 30S ribosome binding site; other site 381666008024 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 381666008025 catalytic core [active] 381666008026 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666008027 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 381666008028 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 381666008029 polyphosphate kinase; Provisional; Region: PRK05443 381666008030 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 381666008031 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 381666008032 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 381666008033 putative domain interface [polypeptide binding]; other site 381666008034 putative active site [active] 381666008035 catalytic site [active] 381666008036 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 381666008037 putative domain interface [polypeptide binding]; other site 381666008038 putative active site [active] 381666008039 catalytic site [active] 381666008040 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 381666008041 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 381666008042 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 381666008043 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 381666008044 dimer interface [polypeptide binding]; other site 381666008045 phosphorylation site [posttranslational modification] 381666008046 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 381666008047 ATP binding site [chemical binding]; other site 381666008048 Mg2+ binding site [ion binding]; other site 381666008049 G-X-G motif; other site 381666008050 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 381666008051 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666008052 active site 381666008053 phosphorylation site [posttranslational modification] 381666008054 intermolecular recognition site; other site 381666008055 dimerization interface [polypeptide binding]; other site 381666008056 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 381666008057 DNA binding site [nucleotide binding] 381666008058 transcriptional regulator PhoU; Provisional; Region: PRK11115 381666008059 PhoU domain; Region: PhoU; pfam01895 381666008060 PhoU domain; Region: PhoU; pfam01895 381666008061 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 381666008062 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 381666008063 Walker A/P-loop; other site 381666008064 ATP binding site [chemical binding]; other site 381666008065 Q-loop/lid; other site 381666008066 ABC transporter signature motif; other site 381666008067 Walker B; other site 381666008068 D-loop; other site 381666008069 H-loop/switch region; other site 381666008070 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 381666008071 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 381666008072 dimer interface [polypeptide binding]; other site 381666008073 conserved gate region; other site 381666008074 putative PBP binding loops; other site 381666008075 ABC-ATPase subunit interface; other site 381666008076 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 381666008077 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 381666008078 dimer interface [polypeptide binding]; other site 381666008079 conserved gate region; other site 381666008080 putative PBP binding loops; other site 381666008081 ABC-ATPase subunit interface; other site 381666008082 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 381666008083 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 381666008084 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 381666008085 active site 381666008086 substrate binding site [chemical binding]; other site 381666008087 metal binding site [ion binding]; metal-binding site 381666008088 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 381666008089 dihydropteroate synthase; Region: DHPS; TIGR01496 381666008090 substrate binding pocket [chemical binding]; other site 381666008091 dimer interface [polypeptide binding]; other site 381666008092 inhibitor binding site; inhibition site 381666008093 FtsH Extracellular; Region: FtsH_ext; pfam06480 381666008094 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 381666008095 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 381666008096 Walker A motif; other site 381666008097 ATP binding site [chemical binding]; other site 381666008098 Walker B motif; other site 381666008099 arginine finger; other site 381666008100 Peptidase family M41; Region: Peptidase_M41; pfam01434 381666008101 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; cl16911 381666008102 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 381666008103 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 381666008104 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 381666008105 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 381666008106 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 381666008107 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 381666008108 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 381666008109 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666008110 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666008111 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 381666008112 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666008113 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666008114 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 381666008115 IMP binding site; other site 381666008116 dimer interface [polypeptide binding]; other site 381666008117 interdomain contacts; other site 381666008118 partial ornithine binding site; other site 381666008119 LysE type translocator; Region: LysE; cl00565 381666008120 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 381666008121 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 381666008122 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 381666008123 catalytic site [active] 381666008124 subunit interface [polypeptide binding]; other site 381666008125 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 381666008126 homotrimer interaction site [polypeptide binding]; other site 381666008127 putative active site [active] 381666008128 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 381666008129 active site 381666008130 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 381666008131 AMP-binding enzyme; Region: AMP-binding; cl15778 381666008132 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666008133 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666008134 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666008135 active site 381666008136 enoyl-CoA hydratase; Provisional; Region: PRK06688 381666008137 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 381666008138 substrate binding site [chemical binding]; other site 381666008139 oxyanion hole (OAH) forming residues; other site 381666008140 trimer interface [polypeptide binding]; other site 381666008141 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666008142 classical (c) SDRs; Region: SDR_c; cd05233 381666008143 NAD(P) binding site [chemical binding]; other site 381666008144 active site 381666008145 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 381666008146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666008147 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 381666008148 active site 381666008149 FMN binding site [chemical binding]; other site 381666008150 substrate binding site [chemical binding]; other site 381666008151 homotetramer interface [polypeptide binding]; other site 381666008152 catalytic residue [active] 381666008153 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 381666008154 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 381666008155 AMP-binding enzyme; Region: AMP-binding; cl15778 381666008156 AMP-binding enzyme; Region: AMP-binding; cl15778 381666008157 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666008158 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 381666008159 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 catalyze...; Region: LT_GEWL; cd00254 381666008160 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666008161 catalytic residue [active] 381666008162 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 381666008163 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 381666008164 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666008165 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 381666008166 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; cl16911 381666008167 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 381666008168 RNA/DNA hybrid binding site [nucleotide binding]; other site 381666008169 active site 381666008170 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 381666008171 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 381666008172 active site 381666008173 catalytic site [active] 381666008174 substrate binding site [chemical binding]; other site 381666008175 integrase; Provisional; Region: int; PHA02601 381666008176 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 381666008177 active site 381666008178 DNA binding site [nucleotide binding] 381666008179 Int/Topo IB signature motif; other site 381666008180 LysR family transcriptional regulator; Provisional; Region: PRK14997 381666008181 Helix-turn-helix domains; Region: HTH; cl00088 381666008182 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 381666008183 putative effector binding pocket; other site 381666008184 dimerization interface [polypeptide binding]; other site 381666008185 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 381666008186 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666008187 NAD(P) binding site [chemical binding]; other site 381666008188 active site 381666008189 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 381666008190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666008191 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 381666008192 MobA/MobL family; Region: MobA_MobL; pfam03389 381666008193 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 381666008194 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666008195 AAA domain; Region: AAA_21; pfam13304 381666008196 Walker A/P-loop; other site 381666008197 ATP binding site [chemical binding]; other site 381666008198 Q-loop/lid; other site 381666008199 ABC transporter signature motif; other site 381666008200 Walker B; other site 381666008201 D-loop; other site 381666008202 H-loop/switch region; other site 381666008203 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 381666008204 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 381666008205 putative active site [active] 381666008206 putative NTP binding site [chemical binding]; other site 381666008207 putative nucleic acid binding site [nucleotide binding]; other site 381666008208 Protein of unknown function DUF262; Region: DUF262; cl14890 381666008209 Isochorismatase family; Region: Isochorismatase; pfam00857 381666008210 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 381666008211 catalytic triad [active] 381666008212 conserved cis-peptide bond; other site 381666008213 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 381666008214 dimerization interface [polypeptide binding]; other site 381666008215 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 381666008216 PAS fold; Region: PAS_4; pfam08448 381666008217 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666008218 metal binding site [ion binding]; metal-binding site 381666008219 active site 381666008220 I-site; other site 381666008221 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 381666008222 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 381666008223 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 381666008224 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 381666008225 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 381666008226 dimer interface [polypeptide binding]; other site 381666008227 conserved gate region; other site 381666008228 putative PBP binding loops; other site 381666008229 ABC-ATPase subunit interface; other site 381666008230 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 381666008231 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 381666008232 dimer interface [polypeptide binding]; other site 381666008233 conserved gate region; other site 381666008234 putative PBP binding loops; other site 381666008235 ABC-ATPase subunit interface; other site 381666008236 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 381666008237 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 381666008238 Walker A/P-loop; other site 381666008239 ATP binding site [chemical binding]; other site 381666008240 Q-loop/lid; other site 381666008241 ABC transporter signature motif; other site 381666008242 Walker B; other site 381666008243 D-loop; other site 381666008244 H-loop/switch region; other site 381666008245 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 381666008246 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 381666008247 Walker A/P-loop; other site 381666008248 ATP binding site [chemical binding]; other site 381666008249 Q-loop/lid; other site 381666008250 ABC transporter signature motif; other site 381666008251 Walker B; other site 381666008252 D-loop; other site 381666008253 H-loop/switch region; other site 381666008254 TOBE domain; Region: TOBE_2; cl01440 381666008255 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 381666008256 Helix-turn-helix domains; Region: HTH; cl00088 381666008257 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 381666008258 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 381666008259 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 381666008260 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 381666008261 putative active site [active] 381666008262 putative substrate binding site [chemical binding]; other site 381666008263 putative cosubstrate binding site; other site 381666008264 catalytic site [active] 381666008265 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 381666008266 nudix motif; other site 381666008267 glycerol kinase; Provisional; Region: glpK; PRK00047 381666008268 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 381666008269 N- and C-terminal domain interface [polypeptide binding]; other site 381666008270 active site 381666008271 MgATP binding site [chemical binding]; other site 381666008272 catalytic site [active] 381666008273 metal binding site [ion binding]; metal-binding site 381666008274 glycerol binding site [chemical binding]; other site 381666008275 homotetramer interface [polypeptide binding]; other site 381666008276 homodimer interface [polypeptide binding]; other site 381666008277 FBP binding site [chemical binding]; other site 381666008278 protein IIAGlc interface [polypeptide binding]; other site 381666008279 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 381666008280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666008281 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 381666008282 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 381666008283 Copper resistance protein D; Region: CopD; cl00563 381666008284 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 381666008285 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 381666008286 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 381666008287 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666008288 metal binding site [ion binding]; metal-binding site 381666008289 active site 381666008290 I-site; other site 381666008291 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666008292 ligand binding site [chemical binding]; other site 381666008293 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 381666008294 homodimer interface [polypeptide binding]; other site 381666008295 substrate-cofactor binding pocket; other site 381666008296 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666008297 catalytic residue [active] 381666008298 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 381666008299 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666008300 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 381666008301 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 381666008302 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 381666008303 Na binding site [ion binding]; other site 381666008304 acetyl-CoA synthetase; Provisional; Region: PRK00174 381666008305 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 381666008306 AMP-binding enzyme; Region: AMP-binding; cl15778 381666008307 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666008308 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 381666008309 EamA-like transporter family; Region: EamA; cl01037 381666008310 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 381666008311 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 381666008312 Fumarase C-terminus; Region: Fumerase_C; cl00795 381666008313 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666008314 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 381666008315 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 381666008316 Walker A motif; other site 381666008317 ATP binding site [chemical binding]; other site 381666008318 Walker B motif; other site 381666008319 arginine finger; other site 381666008320 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 381666008321 Walker A motif; other site 381666008322 ATP binding site [chemical binding]; other site 381666008323 Walker B motif; other site 381666008324 arginine finger; other site 381666008325 Gram-negative bacterial tonB protein; Region: TonB; cl10048 381666008326 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 381666008327 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 381666008328 Hemin uptake protein hemP; Region: hemP; cl10043 381666008329 Domain of unknown function (DUF336); Region: DUF336; cl01249 381666008330 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 381666008331 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 381666008332 Helix-turn-helix domains; Region: HTH; cl00088 381666008333 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 381666008334 putative dimerization interface [polypeptide binding]; other site 381666008335 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 381666008336 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 381666008337 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 381666008338 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 381666008339 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 381666008340 GIY-YIG motif/motif A; other site 381666008341 active site 381666008342 catalytic site [active] 381666008343 putative DNA binding site [nucleotide binding]; other site 381666008344 metal binding site [ion binding]; metal-binding site 381666008345 UvrB/uvrC motif; Region: UVR; pfam02151 381666008346 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 381666008347 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 381666008348 elongation factor P; Validated; Region: PRK00529 381666008349 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 381666008350 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 381666008351 RNA binding site [nucleotide binding]; other site 381666008352 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 381666008353 RNA binding site [nucleotide binding]; other site 381666008354 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 381666008355 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 381666008356 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 the...; Region: PNPsynthase; cd00003 381666008357 active site 381666008358 hydrophilic channel; other site 381666008359 dimerization interface [polypeptide binding]; other site 381666008360 catalytic residues [active] 381666008361 active site lid [active] 381666008362 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 381666008363 Recombination protein O N terminal; Region: RecO_N; cl15812 381666008364 Recombination protein O C terminal; Region: RecO_C; pfam02565 381666008365 GTPase Era; Reviewed; Region: era; PRK00089 381666008366 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 381666008367 G1 box; other site 381666008368 GTP/Mg2+ binding site [chemical binding]; other site 381666008369 Switch I region; other site 381666008370 G2 box; other site 381666008371 Switch II region; other site 381666008372 G3 box; other site 381666008373 G4 box; other site 381666008374 G5 box; other site 381666008375 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 381666008376 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 381666008377 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 381666008378 dimerization interface [polypeptide binding]; other site 381666008379 active site 381666008380 metal binding site [ion binding]; metal-binding site 381666008381 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 381666008382 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 381666008383 signal peptidase I; Provisional; Region: PRK10861 381666008384 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 381666008385 Catalytic site [active] 381666008386 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 381666008387 GTP-binding protein LepA; Provisional; Region: PRK05433 381666008388 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 381666008389 G1 box; other site 381666008390 putative GEF interaction site [polypeptide binding]; other site 381666008391 GTP/Mg2+ binding site [chemical binding]; other site 381666008392 Switch I region; other site 381666008393 G2 box; other site 381666008394 G3 box; other site 381666008395 Switch II region; other site 381666008396 G4 box; other site 381666008397 G5 box; other site 381666008398 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 381666008399 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 381666008400 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 381666008401 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 381666008402 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 381666008403 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 381666008404 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 381666008405 protein binding site [polypeptide binding]; other site 381666008406 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 381666008407 protein binding site [polypeptide binding]; other site 381666008408 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 381666008409 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 381666008410 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 381666008411 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 381666008412 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 381666008413 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666008414 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 381666008415 DNA binding residues [nucleotide binding] 381666008416 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 381666008417 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 381666008418 dimer interface [polypeptide binding]; other site 381666008419 active site 381666008420 Phosphopantetheine attachment site; Region: PP-binding; cl09936 381666008421 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 381666008422 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 381666008423 NAD(P) binding site [chemical binding]; other site 381666008424 homotetramer interface [polypeptide binding]; other site 381666008425 homodimer interface [polypeptide binding]; other site 381666008426 active site 381666008427 Acyl transferase domain; Region: Acyl_transf_1; cl08282 381666008428 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 381666008429 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 381666008430 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 381666008431 dimer interface [polypeptide binding]; other site 381666008432 active site 381666008433 CoA binding pocket [chemical binding]; other site 381666008434 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 381666008435 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 381666008436 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 381666008437 Maf-like protein; Region: Maf; pfam02545 381666008438 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 381666008439 active site 381666008440 dimer interface [polypeptide binding]; other site 381666008441 Predicted methyltransferases [General function prediction only]; Region: COG0313 381666008442 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 381666008443 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 381666008444 tandem repeat interface [polypeptide binding]; other site 381666008445 oligomer interface [polypeptide binding]; other site 381666008446 active site residues [active] 381666008447 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 381666008448 iron-sulfur cluster [ion binding]; other site 381666008449 [2Fe-2S] cluster binding site [ion binding]; other site 381666008450 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 381666008451 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 381666008452 motif II; other site 381666008453 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 381666008454 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 381666008455 RNA binding surface [nucleotide binding]; other site 381666008456 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 381666008457 active site 381666008458 ribonuclease E; Reviewed; Region: rne; PRK10811 381666008459 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 381666008460 homodimer interface [polypeptide binding]; other site 381666008461 oligonucleotide binding site [chemical binding]; other site 381666008462 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 381666008463 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 381666008464 FeS/SAM binding site; other site 381666008465 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 381666008466 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 381666008467 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 381666008468 GTP binding site; other site 381666008469 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 381666008470 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 381666008471 dimer interface [polypeptide binding]; other site 381666008472 putative functional site; other site 381666008473 putative MPT binding site; other site 381666008474 RmuC family; Region: RmuC; pfam02646 381666008475 glyoxylate reductase; Reviewed; Region: PRK13243 381666008476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666008477 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 381666008478 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; cl15357 381666008479 transmembrane helices; other site 381666008480 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 381666008481 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 381666008482 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 381666008483 active site 381666008484 Ferredoxin [Energy production and conversion]; Region: COG1146 381666008485 4Fe-4S binding domain; Region: Fer4; cl02805 381666008486 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 381666008487 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 381666008488 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666008489 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666008490 Helix-turn-helix domains; Region: HTH; cl00088 381666008491 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666008492 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666008493 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666008494 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666008495 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666008496 active site 381666008497 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666008498 NMT1-like family; Region: NMT1_2; cl15260 381666008499 Cupin domain; Region: Cupin_2; cl09118 381666008500 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 381666008501 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666008502 active site 381666008503 phosphorylation site [posttranslational modification] 381666008504 intermolecular recognition site; other site 381666008505 dimerization interface [polypeptide binding]; other site 381666008506 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 381666008507 DNA binding site [nucleotide binding] 381666008508 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 381666008509 sensor protein KdpD; Provisional; Region: PRK10490 381666008510 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 381666008511 Ligand Binding Site [chemical binding]; other site 381666008512 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 381666008513 GAF domain; Region: GAF; cl15785 381666008514 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 381666008515 dimer interface [polypeptide binding]; other site 381666008516 phosphorylation site [posttranslational modification] 381666008517 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 381666008518 ATP binding site [chemical binding]; other site 381666008519 Mg2+ binding site [ion binding]; other site 381666008520 G-X-G motif; other site 381666008521 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 381666008522 nodulation ABC transporter NodI; Provisional; Region: PRK13537 381666008523 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 381666008524 Walker A/P-loop; other site 381666008525 ATP binding site [chemical binding]; other site 381666008526 Q-loop/lid; other site 381666008527 ABC transporter signature motif; other site 381666008528 Walker B; other site 381666008529 D-loop; other site 381666008530 H-loop/switch region; other site 381666008531 ABC-2 type transporter; Region: ABC2_membrane; cl11417 381666008532 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 381666008533 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 381666008534 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 381666008535 homodimer interface [polypeptide binding]; other site 381666008536 substrate-cofactor binding pocket; other site 381666008537 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666008538 catalytic residue [active] 381666008539 amidophosphoribosyltransferase; Provisional; Region: PRK09246 381666008540 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 381666008541 active site 381666008542 tetramer interface [polypeptide binding]; other site 381666008543 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666008544 active site 381666008545 Colicin V production protein; Region: Colicin_V; cl00567 381666008546 Sporulation related domain; Region: SPOR; cl10051 381666008547 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 381666008548 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 381666008549 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 381666008550 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 381666008551 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 381666008552 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 381666008553 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 381666008554 substrate binding site [chemical binding]; other site 381666008555 active site 381666008556 catalytic residues [active] 381666008557 heterodimer interface [polypeptide binding]; other site 381666008558 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; cl16911 381666008559 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 381666008560 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 381666008561 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666008562 catalytic residue [active] 381666008563 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 monomeric; Region: PRAI; cd00405 381666008564 active site 381666008565 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 381666008566 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 381666008567 dimerization interface 3.5A [polypeptide binding]; other site 381666008568 active site 381666008569 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 381666008570 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 381666008571 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 381666008572 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 381666008573 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 381666008574 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 381666008575 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666008576 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 381666008577 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 381666008578 tartrate dehydrogenase; Provisional; Region: PRK08194 381666008579 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 381666008580 substrate binding site [chemical binding]; other site 381666008581 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 381666008582 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 381666008583 substrate binding site [chemical binding]; other site 381666008584 ligand binding site [chemical binding]; other site 381666008585 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 381666008586 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 381666008587 Walker A/P-loop; other site 381666008588 ATP binding site [chemical binding]; other site 381666008589 Q-loop/lid; other site 381666008590 ABC transporter signature motif; other site 381666008591 Walker B; other site 381666008592 D-loop; other site 381666008593 H-loop/switch region; other site 381666008594 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 381666008595 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 381666008596 Walker A/P-loop; other site 381666008597 ATP binding site [chemical binding]; other site 381666008598 Q-loop/lid; other site 381666008599 ABC transporter signature motif; other site 381666008600 Walker B; other site 381666008601 D-loop; other site 381666008602 H-loop/switch region; other site 381666008603 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 381666008604 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 381666008605 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 381666008606 TM-ABC transporter signature motif; other site 381666008607 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 381666008608 TM-ABC transporter signature motif; other site 381666008609 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 381666008610 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 381666008611 dimerization interface [polypeptide binding]; other site 381666008612 ligand binding site [chemical binding]; other site 381666008613 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 381666008614 dimer interface [polypeptide binding]; other site 381666008615 Citrate synthase; Region: Citrate_synt; pfam00285 381666008616 active site 381666008617 citrylCoA binding site [chemical binding]; other site 381666008618 NADH binding [chemical binding]; other site 381666008619 cationic pore residues; other site 381666008620 oxalacetate/citrate binding site [chemical binding]; other site 381666008621 coenzyme A binding site [chemical binding]; other site 381666008622 catalytic triad [active] 381666008623 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 381666008624 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 381666008625 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 381666008626 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 381666008627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666008628 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 381666008629 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 381666008630 SdhC subunit interface [polypeptide binding]; other site 381666008631 proximal heme binding site [chemical binding]; other site 381666008632 cardiolipin binding site; other site 381666008633 Iron-sulfur protein interface; other site 381666008634 proximal quinone binding site [chemical binding]; other site 381666008635 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 381666008636 Iron-sulfur protein interface; other site 381666008637 proximal quinone binding site [chemical binding]; other site 381666008638 SdhD (CybS) interface [polypeptide binding]; other site 381666008639 proximal heme binding site [chemical binding]; other site 381666008640 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666008641 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666008642 DNA-binding site [nucleotide binding]; DNA binding site 381666008643 UTRA domain; Region: UTRA; cl01230 381666008644 malate dehydrogenase; Provisional; Region: PRK05442 381666008645 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 381666008646 NAD(P) binding site [chemical binding]; other site 381666008647 dimer interface [polypeptide binding]; other site 381666008648 malate binding site [chemical binding]; other site 381666008649 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; cl09155 381666008650 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 381666008651 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 381666008652 dimer interface [polypeptide binding]; other site 381666008653 active site 381666008654 citrylCoA binding site [chemical binding]; other site 381666008655 oxalacetate/citrate binding site [chemical binding]; other site 381666008656 coenzyme A binding site [chemical binding]; other site 381666008657 catalytic triad [active] 381666008658 aconitate hydratase; Provisional; Region: acnA; PRK12881 381666008659 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 381666008660 substrate binding site [chemical binding]; other site 381666008661 ligand binding site [chemical binding]; other site 381666008662 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 381666008663 substrate binding site [chemical binding]; other site 381666008664 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 381666008665 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; cl16911 381666008666 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 381666008667 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 381666008668 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; cl16911 381666008669 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 381666008670 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 381666008671 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; cl16911 381666008672 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 381666008673 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 381666008674 Ligand Binding Site [chemical binding]; other site 381666008675 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666008676 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 381666008677 dimerization interface [polypeptide binding]; other site 381666008678 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 381666008679 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 381666008680 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 381666008681 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666008682 putative CheW interface [polypeptide binding]; other site 381666008683 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 381666008684 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 381666008685 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 381666008686 putative active site [active] 381666008687 heat shock protein 90; Provisional; Region: PRK05218 381666008688 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 381666008689 ATP binding site [chemical binding]; other site 381666008690 Mg2+ binding site [ion binding]; other site 381666008691 G-X-G motif; other site 381666008692 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 381666008693 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666008694 DNA-binding site [nucleotide binding]; DNA binding site 381666008695 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 381666008696 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666008697 homodimer interface [polypeptide binding]; other site 381666008698 catalytic residue [active] 381666008699 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 381666008700 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 381666008701 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 381666008702 LysE type translocator; Region: LysE; cl00565 381666008703 EamA-like transporter family; Region: EamA; cl01037 381666008704 EamA-like transporter family; Region: EamA; cl01037 381666008705 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 381666008706 homotrimer interaction site [polypeptide binding]; other site 381666008707 putative active site [active] 381666008708 Cupin domain; Region: Cupin_2; cl09118 381666008709 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 381666008710 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 381666008711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666008712 homodimer interface [polypeptide binding]; other site 381666008713 catalytic residue [active] 381666008714 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666008715 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 381666008716 putative C-terminal domain interface [polypeptide binding]; other site 381666008717 putative GSH binding site (G-site) [chemical binding]; other site 381666008718 putative dimer interface [polypeptide binding]; other site 381666008719 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 381666008720 putative N-terminal domain interface [polypeptide binding]; other site 381666008721 putative dimer interface [polypeptide binding]; other site 381666008722 putative substrate binding pocket (H-site) [chemical binding]; other site 381666008723 LysE type translocator; Region: LysE; cl00565 381666008724 glycolate transporter; Provisional; Region: PRK09695 381666008725 L-lactate permease; Region: Lactate_perm; cl00701 381666008726 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 381666008727 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 381666008728 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 381666008729 Walker A/P-loop; other site 381666008730 ATP binding site [chemical binding]; other site 381666008731 Q-loop/lid; other site 381666008732 ABC transporter signature motif; other site 381666008733 Walker B; other site 381666008734 D-loop; other site 381666008735 H-loop/switch region; other site 381666008736 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 381666008737 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 in DNA...; Region: TOP4c; cd00187 381666008738 CAP-like domain; other site 381666008739 active site 381666008740 primary dimer interface [polypeptide binding]; other site 381666008741 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 catalyze...; Region: LT_GEWL; cd00254 381666008742 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666008743 catalytic residue [active] 381666008744 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 381666008745 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 381666008746 ATP binding site [chemical binding]; other site 381666008747 Mg2+ binding site [ion binding]; other site 381666008748 G-X-G motif; other site 381666008749 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 381666008750 anchoring element; other site 381666008751 dimer interface [polypeptide binding]; other site 381666008752 ATP binding site [chemical binding]; other site 381666008753 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 381666008754 active site 381666008755 metal binding site [ion binding]; metal-binding site 381666008756 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 381666008757 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666008758 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666008759 putative substrate translocation pore; other site 381666008760 ABC transporter ATPase component; Reviewed; Region: PRK11147 381666008761 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 381666008762 Walker A/P-loop; other site 381666008763 ATP binding site [chemical binding]; other site 381666008764 Q-loop/lid; other site 381666008765 ABC transporter signature motif; other site 381666008766 Walker B; other site 381666008767 D-loop; other site 381666008768 H-loop/switch region; other site 381666008769 ABC transporter; Region: ABC_tran_2; pfam12848 381666008770 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 381666008771 benzoate transporter; Region: benE; TIGR00843 381666008772 Benzoate membrane transport protein; Region: BenE; pfam03594 381666008773 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 381666008774 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 381666008775 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 381666008776 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 381666008777 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 381666008778 Protein phosphatase 2C; Region: PP2C; pfam00481 381666008779 active site 381666008780 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 381666008781 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 381666008782 Walker A motif; other site 381666008783 ATP binding site [chemical binding]; other site 381666008784 Walker B motif; other site 381666008785 arginine finger; other site 381666008786 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 381666008787 ligand binding site [chemical binding]; other site 381666008788 flexible hinge region; other site 381666008789 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 381666008790 ligand binding site [chemical binding]; other site 381666008791 flexible hinge region; other site 381666008792 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 381666008793 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 bacteriocins; Region: Peptidase_C39B; cd02418 381666008794 putative active site [active] 381666008795 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 381666008796 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666008797 Walker A/P-loop; other site 381666008798 ATP binding site [chemical binding]; other site 381666008799 Q-loop/lid; other site 381666008800 ABC transporter signature motif; other site 381666008801 Walker B; other site 381666008802 D-loop; other site 381666008803 H-loop/switch region; other site 381666008804 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 381666008805 PPIC-type PPIASE domain; Region: Rotamase; cl08278 381666008806 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 381666008807 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666008808 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666008809 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 381666008810 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 381666008811 phosphopeptide binding site; other site 381666008812 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 381666008813 phosphopeptide binding site; other site 381666008814 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666008815 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 381666008816 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 381666008817 Uncharacterized conserved protein [Function unknown]; Region: COG1262 381666008818 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 381666008819 Protein kinase domain; Region: Pkinase; pfam00069 381666008820 Catalytic domain of Protein Kinases; Region: PKc; cd00180 381666008821 active site 381666008822 ATP binding site [chemical binding]; other site 381666008823 substrate binding site [chemical binding]; other site 381666008824 activation loop (A-loop); other site 381666008825 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 381666008826 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 381666008827 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 381666008828 ATP binding site [chemical binding]; other site 381666008829 Mg++ binding site [ion binding]; other site 381666008830 motif III; other site 381666008831 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 381666008832 nucleotide binding region [chemical binding]; other site 381666008833 ATP-binding site [chemical binding]; other site 381666008834 TIGR03440 family protein; Region: unchr_TIGR03440 381666008835 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 381666008836 probable methyltransferase; Region: TIGR03438 381666008837 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 381666008838 Integral membrane protein TerC family; Region: TerC; cl10468 381666008839 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 381666008840 dimerization interface [polypeptide binding]; other site 381666008841 active site 381666008842 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 381666008843 folate binding site [chemical binding]; other site 381666008844 NADP+ binding site [chemical binding]; other site 381666008845 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 381666008846 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 381666008847 Protein of unknown function (DUF615); Region: DUF615; cl01147 381666008848 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 381666008849 MPT binding site; other site 381666008850 trimer interface [polypeptide binding]; other site 381666008851 Membrane transport protein; Region: Mem_trans; cl09117 381666008852 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 381666008853 catalytic site [active] 381666008854 putative active site [active] 381666008855 putative substrate binding site [chemical binding]; other site 381666008856 dimer interface [polypeptide binding]; other site 381666008857 Peptidase family M48; Region: Peptidase_M48; cl12018 381666008858 GTPase RsgA; Reviewed; Region: PRK00098 381666008859 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 381666008860 RNA binding site [nucleotide binding]; other site 381666008861 homodimer interface [polypeptide binding]; other site 381666008862 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 381666008863 GTPase/Zn-binding domain interface [polypeptide binding]; other site 381666008864 GTP/Mg2+ binding site [chemical binding]; other site 381666008865 G4 box; other site 381666008866 G5 box; other site 381666008867 G1 box; other site 381666008868 Switch I region; other site 381666008869 G2 box; other site 381666008870 G3 box; other site 381666008871 Switch II region; other site 381666008872 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 381666008873 CobD/Cbib protein; Region: CobD_Cbib; cl00561 381666008874 Cupin domain; Region: Cupin_2; cl09118 381666008875 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 381666008876 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 381666008877 Helix-turn-helix domains; Region: HTH; cl00088 381666008878 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 381666008879 dimerization interface [polypeptide binding]; other site 381666008880 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 381666008881 active site 381666008882 HIGH motif; other site 381666008883 nucleotide binding site [chemical binding]; other site 381666008884 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 381666008885 active site 381666008886 KMSKS motif; other site 381666008887 helicase 45; Provisional; Region: PTZ00424 381666008888 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 381666008889 ATP binding site [chemical binding]; other site 381666008890 Mg++ binding site [ion binding]; other site 381666008891 motif III; other site 381666008892 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 381666008893 nucleotide binding region [chemical binding]; other site 381666008894 ATP-binding site [chemical binding]; other site 381666008895 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 381666008896 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 381666008897 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 381666008898 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666008899 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666008900 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 381666008901 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666008902 Helix-turn-helix domains; Region: HTH; cl00088 381666008903 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 381666008904 dimerization interface [polypeptide binding]; other site 381666008905 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 381666008906 nucleoside/Zn binding site; other site 381666008907 dimer interface [polypeptide binding]; other site 381666008908 catalytic motif [active] 381666008909 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 381666008910 Phosphoesterase family; Region: Phosphoesterase; cl15450 381666008911 Domain of unknown function (DUF756); Region: DUF756; pfam05506 381666008912 Domain of unknown function (DUF756); Region: DUF756; pfam05506 381666008913 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 381666008914 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 381666008915 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 381666008916 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 381666008917 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666008918 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 381666008919 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 381666008920 DNA binding residues [nucleotide binding] 381666008921 DNA primase; Validated; Region: dnaG; PRK05667 381666008922 CHC2 zinc finger; Region: zf-CHC2; cl15369 381666008923 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 381666008924 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 381666008925 active site 381666008926 metal binding site [ion binding]; metal-binding site 381666008927 interdomain interaction site; other site 381666008928 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 381666008929 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 381666008930 GatB domain; Region: GatB_Yqey; cl11497 381666008931 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 381666008932 HI0933-like protein; Region: HI0933_like; pfam03486 381666008933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666008934 UGMP family protein; Validated; Region: PRK09604 381666008935 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 381666008936 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 381666008937 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 381666008938 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 381666008939 TPP-binding site; other site 381666008940 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 381666008941 PYR/PP interface [polypeptide binding]; other site 381666008942 dimer interface [polypeptide binding]; other site 381666008943 TPP binding site [chemical binding]; other site 381666008944 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 381666008945 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 381666008946 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 381666008947 substrate binding pocket [chemical binding]; other site 381666008948 chain length determination region; other site 381666008949 substrate-Mg2+ binding site; other site 381666008950 catalytic residues [active] 381666008951 aspartate-rich region 1; other site 381666008952 active site lid residues [active] 381666008953 aspartate-rich region 2; other site 381666008954 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 381666008955 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 381666008956 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 381666008957 [2Fe-2S] cluster binding site [ion binding]; other site 381666008958 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 381666008959 alpha subunit interface [polypeptide binding]; other site 381666008960 active site 381666008961 substrate binding site [chemical binding]; other site 381666008962 Fe binding site [ion binding]; other site 381666008963 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 381666008964 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 381666008965 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 381666008966 active site residue [active] 381666008967 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 381666008968 active site residue [active] 381666008969 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 381666008970 Dienelactone hydrolase family; Region: DLH; pfam01738 381666008971 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; cl12031 381666008972 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 381666008973 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666008974 DNA polymerase I; Provisional; Region: PRK05755 381666008975 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 381666008976 active site 381666008977 metal binding site 1 [ion binding]; metal-binding site 381666008978 putative 5' ssDNA interaction site; other site 381666008979 metal binding site 3; metal-binding site 381666008980 metal binding site 2 [ion binding]; metal-binding site 381666008981 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 381666008982 putative DNA binding site [nucleotide binding]; other site 381666008983 putative metal binding site [ion binding]; other site 381666008984 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 381666008985 active site 381666008986 catalytic site [active] 381666008987 substrate binding site [chemical binding]; other site 381666008988 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 381666008989 active site 381666008990 DNA binding site [nucleotide binding] 381666008991 catalytic site [active] 381666008992 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 381666008993 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 381666008994 Phosphotransferase enzyme family; Region: APH; pfam01636 381666008995 putative active site [active] 381666008996 putative substrate binding site [chemical binding]; other site 381666008997 ATP binding site [chemical binding]; other site 381666008998 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666008999 Helix-turn-helix domains; Region: HTH; cl00088 381666009000 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666009001 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 381666009002 putative catalytic cysteine [active] 381666009003 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 381666009004 AMP-binding enzyme; Region: AMP-binding; cl15778 381666009005 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666009006 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666009007 D-galactonate transporter; Region: 2A0114; TIGR00893 381666009008 putative substrate translocation pore; other site 381666009009 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 381666009010 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666009011 Family description; Region: UvrD_C_2; cl15862 381666009012 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 381666009013 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 381666009014 HIGH motif; other site 381666009015 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 381666009016 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 381666009017 active site 381666009018 KMSKS motif; other site 381666009019 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 381666009020 tRNA binding surface [nucleotide binding]; other site 381666009021 anticodon binding site; other site 381666009022 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 381666009023 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 381666009024 active site 381666009025 tetramer interface; other site 381666009026 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666009027 DNA-binding site [nucleotide binding]; DNA binding site 381666009028 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 381666009029 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666009030 DNA-binding site [nucleotide binding]; DNA binding site 381666009031 FCD domain; Region: FCD; cl11656 381666009032 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 381666009033 dimer interface [polypeptide binding]; other site 381666009034 conserved gate region; other site 381666009035 putative PBP binding loops; other site 381666009036 ABC-ATPase subunit interface; other site 381666009037 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666009038 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 381666009039 dimer interface [polypeptide binding]; other site 381666009040 conserved gate region; other site 381666009041 putative PBP binding loops; other site 381666009042 ABC-ATPase subunit interface; other site 381666009043 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 381666009044 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 381666009045 Walker A/P-loop; other site 381666009046 ATP binding site [chemical binding]; other site 381666009047 Q-loop/lid; other site 381666009048 ABC transporter signature motif; other site 381666009049 Walker B; other site 381666009050 D-loop; other site 381666009051 H-loop/switch region; other site 381666009052 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666009053 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 381666009054 substrate binding pocket [chemical binding]; other site 381666009055 membrane-bound complex binding site; other site 381666009056 hinge residues; other site 381666009057 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 381666009058 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 381666009059 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 381666009060 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666009061 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 381666009062 CPxP motif; other site 381666009063 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 381666009064 nudix motif; other site 381666009065 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 381666009066 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 381666009067 tetramer interface [polypeptide binding]; other site 381666009068 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666009069 catalytic residue [active] 381666009070 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 381666009071 active site 1 [active] 381666009072 dimer interface [polypeptide binding]; other site 381666009073 hexamer interface [polypeptide binding]; other site 381666009074 active site 2 [active] 381666009075 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 381666009076 intersubunit interface [polypeptide binding]; other site 381666009077 active site 381666009078 Zn2+ binding site [ion binding]; other site 381666009079 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 381666009080 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666009081 Helix-turn-helix domains; Region: HTH; cl00088 381666009082 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 381666009083 dimerization interface [polypeptide binding]; other site 381666009084 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 381666009085 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 381666009086 dimer interface [polypeptide binding]; other site 381666009087 active site residues [active] 381666009088 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 381666009089 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 381666009090 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 381666009091 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 formation of...; Region: AlaRS_core; cd00673 381666009092 motif 1; other site 381666009093 active site 381666009094 motif 2; other site 381666009095 motif 3; other site 381666009096 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 381666009097 DHHA1 domain; Region: DHHA1; pfam02272 381666009098 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666009099 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666009100 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 381666009101 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666009102 NMT1-like family; Region: NMT1_2; cl15260 381666009103 potassium/proton antiporter; Reviewed; Region: PRK05326 381666009104 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; cl15357 381666009105 Transporter associated domain; Region: CorC_HlyC; cl08393 381666009106 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 381666009107 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 381666009108 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 381666009109 putative deacylase active site [active] 381666009110 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 381666009111 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 381666009112 dimer interface [polypeptide binding]; other site 381666009113 active site 381666009114 heme binding site [chemical binding]; other site 381666009115 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 381666009116 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666009117 Helix-turn-helix domains; Region: HTH; cl00088 381666009118 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 381666009119 dimerization interface [polypeptide binding]; other site 381666009120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666009121 NMT1-like family; Region: NMT1_2; cl15260 381666009122 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 381666009123 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 381666009124 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 381666009125 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 381666009126 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666009127 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666009128 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 381666009129 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 381666009130 active site 381666009131 HIGH motif; other site 381666009132 nucleotide binding site [chemical binding]; other site 381666009133 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 381666009134 KMSKS motif; other site 381666009135 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 381666009136 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; cl09940 381666009137 MAPEG family; Region: MAPEG; cl09190 381666009138 YceI-like domain; Region: YceI; cl01001 381666009139 YaeQ protein; Region: YaeQ; cl01913 381666009140 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 381666009141 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 381666009142 putative active site pocket [active] 381666009143 dimerization interface [polypeptide binding]; other site 381666009144 putative catalytic residue [active] 381666009145 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 381666009146 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 381666009147 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 381666009148 AMP-binding enzyme; Region: AMP-binding; cl15778 381666009149 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666009150 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 381666009151 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 381666009152 catalytic residues [active] 381666009153 Cupin domain; Region: Cupin_2; cl09118 381666009154 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 381666009155 AAA domain; Region: AAA_33; pfam13671 381666009156 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666009157 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 381666009158 putative ATP binding site [chemical binding]; other site 381666009159 putative substrate interface [chemical binding]; other site 381666009160 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 381666009161 AsmA-like C-terminal region; Region: AsmA_2; cl15864 381666009162 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666009163 putative substrate translocation pore; other site 381666009164 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666009165 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 381666009166 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 381666009167 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 381666009168 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 381666009169 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 381666009170 S-adenosylmethionine binding site [chemical binding]; other site 381666009171 Protein of unknown function DUF72; Region: DUF72; cl00777 381666009172 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 381666009173 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666009174 AMP-binding enzyme; Region: AMP-binding; cl15778 381666009175 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666009176 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666009177 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666009178 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666009179 active site 381666009180 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666009181 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 381666009182 Flavin Reductases; Region: FlaRed; cl00801 381666009183 Helix-turn-helix domains; Region: HTH; cl00088 381666009184 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666009185 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 381666009186 putative DNA binding site [nucleotide binding]; other site 381666009187 putative Zn2+ binding site [ion binding]; other site 381666009188 AsnC family; Region: AsnC_trans_reg; pfam01037 381666009189 Putative cyclase; Region: Cyclase; cl00814 381666009190 kynureninase; Region: kynureninase; TIGR01814 381666009191 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 381666009192 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666009193 catalytic residue [active] 381666009194 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 381666009195 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666009196 Helix-turn-helix domains; Region: HTH; cl00088 381666009197 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 381666009198 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666009199 FAD binding site [chemical binding]; other site 381666009200 substrate binding pocket [chemical binding]; other site 381666009201 catalytic base [active] 381666009202 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 381666009203 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 381666009204 dimer interface [polypeptide binding]; other site 381666009205 decamer (pentamer of dimers) interface [polypeptide binding]; other site 381666009206 catalytic triad [active] 381666009207 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 381666009208 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 381666009209 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 381666009210 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 381666009211 putative active site [active] 381666009212 heme pocket [chemical binding]; other site 381666009213 PAS fold; Region: PAS; pfam00989 381666009214 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 381666009215 putative active site [active] 381666009216 heme pocket [chemical binding]; other site 381666009217 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666009218 metal binding site [ion binding]; metal-binding site 381666009219 active site 381666009220 I-site; other site 381666009221 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 381666009222 Predicted transporter component [General function prediction only]; Region: COG2391 381666009223 Sulphur transport; Region: Sulf_transp; cl01018 381666009224 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 381666009225 Ligand Binding Site [chemical binding]; other site 381666009226 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 381666009227 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666009228 ligand binding site [chemical binding]; other site 381666009229 translocation protein TolB; Provisional; Region: tolB; PRK02889 381666009230 TolB amino-terminal domain; Region: TolB_N; cl00639 381666009231 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 381666009232 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 381666009233 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 381666009234 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 381666009235 Gram-negative bacterial tonB protein; Region: TonB; cl10048 381666009236 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 381666009237 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 381666009238 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 381666009239 active site 381666009240 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 381666009241 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 381666009242 dimer interface [polypeptide binding]; other site 381666009243 active site 381666009244 glycine-pyridoxal phosphate binding site [chemical binding]; other site 381666009245 folate binding site [chemical binding]; other site 381666009246 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 381666009247 ATP cone domain; Region: ATP-cone; pfam03477 381666009248 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 381666009249 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 381666009250 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 381666009251 PilX N-terminal; Region: PilX_N; pfam14341 381666009252 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 381666009253 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 381666009254 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 381666009255 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 381666009256 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 381666009257 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 381666009258 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 381666009259 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 381666009260 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 381666009261 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 381666009262 Type II transport protein GspH; Region: GspH; pfam12019 381666009263 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 381666009264 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 381666009265 catalytic motif [active] 381666009266 Zn binding site [ion binding]; other site 381666009267 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; cl00161 381666009268 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 381666009269 Lumazine binding domain; Region: Lum_binding; pfam00677 381666009270 Lumazine binding domain; Region: Lum_binding; pfam00677 381666009271 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 381666009272 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 381666009273 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; cl00522 381666009274 dimerization interface [polypeptide binding]; other site 381666009275 active site 381666009276 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 381666009277 homopentamer interface [polypeptide binding]; other site 381666009278 active site 381666009279 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 381666009280 putative RNA binding site [nucleotide binding]; other site 381666009281 aminotransferase; Validated; Region: PRK07337 381666009282 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 381666009283 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666009284 homodimer interface [polypeptide binding]; other site 381666009285 catalytic residue [active] 381666009286 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 catalyze...; Region: LT_GEWL; cd00254 381666009287 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666009288 catalytic residue [active] 381666009289 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 381666009290 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 381666009291 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 381666009292 AMP-binding enzyme; Region: AMP-binding; cl15778 381666009293 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 381666009294 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666009295 putative C-terminal domain interface [polypeptide binding]; other site 381666009296 putative GSH binding site (G-site) [chemical binding]; other site 381666009297 putative dimer interface [polypeptide binding]; other site 381666009298 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 381666009299 putative N-terminal domain interface [polypeptide binding]; other site 381666009300 putative dimer interface [polypeptide binding]; other site 381666009301 putative substrate binding pocket (H-site) [chemical binding]; other site 381666009302 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 381666009303 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 381666009304 Aldose 1-epimerase, similar to Synechocystis Slr1438; Region: Aldose_epim_Slr1438; cd09025 381666009305 active site 381666009306 catalytic residues [active] 381666009307 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666009308 NMT1-like family; Region: NMT1_2; cl15260 381666009309 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666009310 Helix-turn-helix domains; Region: HTH; cl00088 381666009311 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 381666009312 dimerization interface [polypeptide binding]; other site 381666009313 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 381666009314 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 381666009315 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; cl16911 381666009316 Bacitracin resistance protein BacA; Region: BacA; cl00858 381666009317 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 381666009318 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666009319 Helix-turn-helix domains; Region: HTH; cl00088 381666009320 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666009321 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666009322 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666009323 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 381666009324 Protein export membrane protein; Region: SecD_SecF; cl14618 381666009325 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 381666009326 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 381666009327 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 381666009328 S-adenosylmethionine binding site [chemical binding]; other site 381666009329 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains; Region: RHOD_2; cd01528 381666009330 active site residue [active] 381666009331 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 381666009332 META domain; Region: META; cl01245 381666009333 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 381666009334 O-Antigen ligase; Region: Wzy_C; cl04850 381666009335 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 381666009336 putative ADP-binding pocket [chemical binding]; other site 381666009337 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 381666009338 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 381666009339 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 381666009340 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 381666009341 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 381666009342 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 381666009343 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 381666009344 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 381666009345 active site 381666009346 substrate binding site [chemical binding]; other site 381666009347 metal binding site [ion binding]; metal-binding site 381666009348 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 381666009349 Bacterial sugar transferase; Region: Bac_transf; cl00939 381666009350 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 381666009351 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666009352 MatE; Region: MatE; cl10513 381666009353 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 381666009354 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666009355 putative ADP-binding pocket [chemical binding]; other site 381666009356 hypothetical protein; Provisional; Region: PRK07233 381666009357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666009358 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 381666009359 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 381666009360 substrate binding site; other site 381666009361 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 381666009362 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 381666009363 Ligand binding site; other site 381666009364 Putative Catalytic site; other site 381666009365 DXD motif; other site 381666009366 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 381666009367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666009368 NAD(P) binding site [chemical binding]; other site 381666009369 active site 381666009370 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 381666009371 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666009372 NAD(P) binding site [chemical binding]; other site 381666009373 active site 381666009374 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 381666009375 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666009376 putative ADP-binding pocket [chemical binding]; other site 381666009377 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 381666009378 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666009379 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666009380 NAD(P) binding site [chemical binding]; other site 381666009381 active site 381666009382 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 381666009383 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 381666009384 NADP-binding site; other site 381666009385 homotetramer interface [polypeptide binding]; other site 381666009386 substrate binding site [chemical binding]; other site 381666009387 homodimer interface [polypeptide binding]; other site 381666009388 active site 381666009389 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666009390 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 381666009391 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 381666009392 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; cl16911 381666009393 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 381666009394 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 381666009395 Walker A/P-loop; other site 381666009396 ATP binding site [chemical binding]; other site 381666009397 Q-loop/lid; other site 381666009398 ABC transporter signature motif; other site 381666009399 Walker B; other site 381666009400 D-loop; other site 381666009401 H-loop/switch region; other site 381666009402 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 381666009403 putative carbohydrate binding site [chemical binding]; other site 381666009404 ABC-2 type transporter; Region: ABC2_membrane; cl11417 381666009405 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 381666009406 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 381666009407 Substrate binding site; other site 381666009408 Cupin domain; Region: Cupin_2; cl09118 381666009409 Cupin domain; Region: Cupin_2; cl09118 381666009410 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 381666009411 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 381666009412 substrate binding site; other site 381666009413 tetramer interface; other site 381666009414 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 381666009415 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 381666009416 NADP binding site [chemical binding]; other site 381666009417 active site 381666009418 putative substrate binding site [chemical binding]; other site 381666009419 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 381666009420 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 381666009421 NAD binding site [chemical binding]; other site 381666009422 substrate binding site [chemical binding]; other site 381666009423 homodimer interface [polypeptide binding]; other site 381666009424 active site 381666009425 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 381666009426 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 381666009427 active site 381666009428 metal binding site [ion binding]; metal-binding site 381666009429 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 381666009430 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 381666009431 putative acyl-acceptor binding pocket; other site 381666009432 dihydroorotase; Provisional; Region: PRK07627 381666009433 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 381666009434 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 381666009435 active site 381666009436 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 381666009437 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 381666009438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666009439 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666009440 active site 381666009441 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 includes...; Region: RuvC_resolvase; cl00243 381666009442 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 381666009443 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 381666009444 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 381666009445 RNA binding surface [nucleotide binding]; other site 381666009446 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 381666009447 active site 381666009448 uracil binding [chemical binding]; other site 381666009449 hemY protein; Region: hemY_coli; TIGR00540 381666009450 HemY protein N-terminus; Region: HemY_N; pfam07219 381666009451 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 381666009452 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 381666009453 active site 381666009454 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 381666009455 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 381666009456 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; cl03189 381666009457 domain interfaces; other site 381666009458 active site 381666009459 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 381666009460 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 381666009461 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 381666009462 dinuclear metal binding motif [ion binding]; other site 381666009463 RNA polymerase sigma factor; Provisional; Region: PRK12514 381666009464 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666009465 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 381666009466 DNA binding residues [nucleotide binding] 381666009467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 381666009468 Anti-sigma-K factor rskA; Region: RskA; pfam10099 381666009469 argininosuccinate lyase; Provisional; Region: PRK00855 381666009470 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 381666009471 active sites [active] 381666009472 tetramer interface [polypeptide binding]; other site 381666009473 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 381666009474 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 381666009475 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 381666009476 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 381666009477 oligomeric interface; other site 381666009478 putative active site [active] 381666009479 homodimer interface [polypeptide binding]; other site 381666009480 arginine decarboxylase; Provisional; Region: PRK15029 381666009481 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 381666009482 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 381666009483 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666009484 catalytic residue [active] 381666009485 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 381666009486 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 381666009487 trimer interface [polypeptide binding]; other site 381666009488 active site 381666009489 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 381666009490 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 381666009491 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 381666009492 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 381666009493 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 381666009494 [4Fe-4S] binding site [ion binding]; other site 381666009495 molybdopterin cofactor binding site; other site 381666009496 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 381666009497 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 381666009498 molybdopterin cofactor binding site; other site 381666009499 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 381666009500 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 381666009501 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 381666009502 4Fe-4S binding domain; Region: Fer4; cl02805 381666009503 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 381666009504 4Fe-4S binding domain; Region: Fer4; cl02805 381666009505 iron-sulfur cluster-binding protein; Region: TIGR00273 381666009506 4Fe-4S binding domain; Region: Fer4; cl02805 381666009507 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 381666009508 4Fe-4S binding domain; Region: Fer4; cl02805 381666009509 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 381666009510 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 381666009511 antiporter inner membrane protein; Provisional; Region: PRK11670 381666009512 Domain of unknown function DUF59; Region: DUF59; cl00941 381666009513 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 381666009514 Walker A motif; other site 381666009515 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666009516 ligand binding site [chemical binding]; other site 381666009517 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 381666009518 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 381666009519 active site 381666009520 HIGH motif; other site 381666009521 KMSKS motif; other site 381666009522 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 381666009523 tRNA binding surface [nucleotide binding]; other site 381666009524 anticodon binding site; other site 381666009525 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 381666009526 dimer interface [polypeptide binding]; other site 381666009527 putative tRNA-binding site [nucleotide binding]; other site 381666009528 pyruvate carboxylase; Reviewed; Region: PRK12999 381666009529 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666009530 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 381666009531 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 381666009532 carboxyltransferase (CT) interaction site; other site 381666009533 biotinylation site [posttranslational modification]; other site 381666009534 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 381666009535 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 381666009536 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 381666009537 acyl-CoA synthetase; Validated; Region: PRK06178 381666009538 AMP-binding enzyme; Region: AMP-binding; cl15778 381666009539 AMP-binding enzyme; Region: AMP-binding; cl15778 381666009540 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666009541 Helix-turn-helix domains; Region: HTH; cl00088 381666009542 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666009543 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 381666009544 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 381666009545 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 381666009546 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 381666009547 dimer interface [polypeptide binding]; other site 381666009548 conserved gate region; other site 381666009549 putative PBP binding loops; other site 381666009550 ABC-ATPase subunit interface; other site 381666009551 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 381666009552 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 381666009553 dimer interface [polypeptide binding]; other site 381666009554 conserved gate region; other site 381666009555 putative PBP binding loops; other site 381666009556 ABC-ATPase subunit interface; other site 381666009557 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 381666009558 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666009559 Walker A/P-loop; other site 381666009560 ATP binding site [chemical binding]; other site 381666009561 Q-loop/lid; other site 381666009562 ABC transporter signature motif; other site 381666009563 Walker B; other site 381666009564 D-loop; other site 381666009565 H-loop/switch region; other site 381666009566 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666009567 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 381666009568 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666009569 Walker A/P-loop; other site 381666009570 ATP binding site [chemical binding]; other site 381666009571 Q-loop/lid; other site 381666009572 ABC transporter signature motif; other site 381666009573 Walker B; other site 381666009574 D-loop; other site 381666009575 H-loop/switch region; other site 381666009576 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666009577 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 381666009578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 381666009579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 381666009580 Family of unknown function (DUF490); Region: DUF490; pfam04357 381666009581 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 381666009582 Surface antigen; Region: Bac_surface_Ag; cl03097 381666009583 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 381666009584 ScpA/B protein; Region: ScpA_ScpB; cl00598 381666009585 pantoate--beta-alanine ligase; Region: panC; TIGR00018 381666009586 Pantoate-beta-alanine ligase; Region: PanC; cd00560 381666009587 active site 381666009588 ATP-binding site [chemical binding]; other site 381666009589 pantoate-binding site; other site 381666009590 HXXH motif; other site 381666009591 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 381666009592 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 381666009593 cobyric acid synthase; Provisional; Region: PRK00784 381666009594 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666009595 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666009596 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 381666009597 catalytic triad [active] 381666009598 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 381666009599 homotrimer interface [polypeptide binding]; other site 381666009600 Walker A motif; other site 381666009601 GTP binding site [chemical binding]; other site 381666009602 Walker B motif; other site 381666009603 CobD/Cbib protein; Region: CobD_Cbib; cl00561 381666009604 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 381666009605 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 381666009606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666009607 homodimer interface [polypeptide binding]; other site 381666009608 catalytic residue [active] 381666009609 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 381666009610 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 381666009611 cobalamin binding residues [chemical binding]; other site 381666009612 putative BtuC binding residues; other site 381666009613 dimer interface [polypeptide binding]; other site 381666009614 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 381666009615 catalytic core [active] 381666009616 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 381666009617 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 381666009618 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 381666009619 active site pocket [active] 381666009620 putative dimer interface [polypeptide binding]; other site 381666009621 putative cataytic base [active] 381666009622 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666009623 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 381666009624 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 381666009625 homodimer interface [polypeptide binding]; other site 381666009626 Walker A motif; other site 381666009627 ATP binding site [chemical binding]; other site 381666009628 hydroxycobalamin binding site [chemical binding]; other site 381666009629 Walker B motif; other site 381666009630 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 381666009631 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 381666009632 Walker A/P-loop; other site 381666009633 ATP binding site [chemical binding]; other site 381666009634 Q-loop/lid; other site 381666009635 ABC transporter signature motif; other site 381666009636 Walker B; other site 381666009637 D-loop; other site 381666009638 H-loop/switch region; other site 381666009639 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 381666009640 ABC-ATPase subunit interface; other site 381666009641 dimer interface [polypeptide binding]; other site 381666009642 putative PBP binding regions; other site 381666009643 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 381666009644 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 381666009645 N-terminal plug; other site 381666009646 ligand-binding site [chemical binding]; other site 381666009647 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 381666009648 Cell division protein ZapA; Region: ZapA; cl01146 381666009649 EVE domain; Region: EVE; cl00728 381666009650 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 381666009651 Protein of unknown function (DUF541); Region: SIMPL; cl01077 381666009652 malonyl-CoA synthase; Validated; Region: PRK07514 381666009653 AMP-binding enzyme; Region: AMP-binding; cl15778 381666009654 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666009655 enoyl-CoA hydratase; Provisional; Region: PRK06127 381666009656 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 381666009657 substrate binding site [chemical binding]; other site 381666009658 oxyanion hole (OAH) forming residues; other site 381666009659 trimer interface [polypeptide binding]; other site 381666009660 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666009661 NMT1-like family; Region: NMT1_2; cl15260 381666009662 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 381666009663 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 381666009664 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666009665 DNA-binding site [nucleotide binding]; DNA binding site 381666009666 FCD domain; Region: FCD; cl11656 381666009667 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 381666009668 Peptidase family M48; Region: Peptidase_M48; cl12018 381666009669 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 381666009670 Helix-turn-helix domains; Region: HTH; cl00088 381666009671 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 381666009672 putative dimerization interface [polypeptide binding]; other site 381666009673 putative substrate binding pocket [chemical binding]; other site 381666009674 Dehydratase family; Region: ILVD_EDD; cl00340 381666009675 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 381666009676 multifunctional aminopeptidase A; Provisional; Region: PRK00913 381666009677 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 381666009678 interface (dimer of trimers) [polypeptide binding]; other site 381666009679 Substrate-binding/catalytic site; other site 381666009680 Zn-binding sites [ion binding]; other site 381666009681 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 381666009682 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 381666009683 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 381666009684 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 381666009685 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 381666009686 putative active site [active] 381666009687 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 381666009688 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 381666009689 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 381666009690 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 381666009691 CysD dimerization site [polypeptide binding]; other site 381666009692 G1 box; other site 381666009693 putative GEF interaction site [polypeptide binding]; other site 381666009694 GTP/Mg2+ binding site [chemical binding]; other site 381666009695 Switch I region; other site 381666009696 G2 box; other site 381666009697 G3 box; other site 381666009698 Switch II region; other site 381666009699 G4 box; other site 381666009700 G5 box; other site 381666009701 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 381666009702 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 381666009703 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 381666009704 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 381666009705 Active Sites [active] 381666009706 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 381666009707 Active Sites [active] 381666009708 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 381666009709 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 381666009710 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 381666009711 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 381666009712 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 381666009713 Helix-turn-helix domains; Region: HTH; cl00088 381666009714 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 381666009715 substrate binding site [chemical binding]; other site 381666009716 dimerization interface [polypeptide binding]; other site 381666009717 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 381666009718 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 381666009719 S-adenosylmethionine binding site [chemical binding]; other site 381666009720 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 381666009721 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 381666009722 putative ligand binding site [chemical binding]; other site 381666009723 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 381666009724 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666009725 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; cl12031 381666009726 substrate binding pocket [chemical binding]; other site 381666009727 Peptidase family M48; Region: Peptidase_M48; cl12018 381666009728 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 381666009729 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 381666009730 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 381666009731 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 381666009732 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 381666009733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666009734 homodimer interface [polypeptide binding]; other site 381666009735 catalytic residue [active] 381666009736 Eukaryotic cytochrome b(561); Region: Cyt_b561; cl14616 381666009737 putative heme binding sites [chemical binding]; other site 381666009738 GntP family permease; Region: GntP_permease; pfam02447 381666009739 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 381666009740 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 381666009741 N-formylglutamate amidohydrolase; Region: FGase; cl01522 381666009742 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 381666009743 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 381666009744 active site 381666009745 imidazolonepropionase; Validated; Region: PRK09356 381666009746 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 381666009747 active site 381666009748 HutD; Region: HutD; cl01532 381666009749 urocanate hydratase; Provisional; Region: PRK05414 381666009750 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 381666009751 active sites [active] 381666009752 tetramer interface [polypeptide binding]; other site 381666009753 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 381666009754 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666009755 DNA-binding site [nucleotide binding]; DNA binding site 381666009756 UTRA domain; Region: UTRA; cl01230 381666009757 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 381666009758 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 381666009759 Walker A/P-loop; other site 381666009760 ATP binding site [chemical binding]; other site 381666009761 Q-loop/lid; other site 381666009762 ABC transporter signature motif; other site 381666009763 Walker B; other site 381666009764 D-loop; other site 381666009765 H-loop/switch region; other site 381666009766 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 381666009767 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 381666009768 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 381666009769 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 381666009770 substrate binding pocket [chemical binding]; other site 381666009771 membrane-bound complex binding site; other site 381666009772 hinge residues; other site 381666009773 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666009774 NAD(P) binding site [chemical binding]; other site 381666009775 active site 381666009776 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 381666009777 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 381666009778 catalytic loop [active] 381666009779 iron binding site [ion binding]; other site 381666009780 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 381666009781 FAD binding pocket [chemical binding]; other site 381666009782 FAD binding motif [chemical binding]; other site 381666009783 phosphate binding motif [ion binding]; other site 381666009784 beta-alpha-beta structure motif; other site 381666009785 NAD binding pocket [chemical binding]; other site 381666009786 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 381666009787 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 381666009788 inhibitor-cofactor binding pocket; inhibition site 381666009789 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666009790 catalytic residue [active] 381666009791 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666009792 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 381666009793 Walker A/P-loop; other site 381666009794 ATP binding site [chemical binding]; other site 381666009795 Q-loop/lid; other site 381666009796 ABC transporter signature motif; other site 381666009797 Walker B; other site 381666009798 D-loop; other site 381666009799 H-loop/switch region; other site 381666009800 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666009801 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 381666009802 Walker A/P-loop; other site 381666009803 ATP binding site [chemical binding]; other site 381666009804 Q-loop/lid; other site 381666009805 ABC transporter signature motif; other site 381666009806 Walker B; other site 381666009807 D-loop; other site 381666009808 H-loop/switch region; other site 381666009809 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 381666009810 TM-ABC transporter signature motif; other site 381666009811 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 381666009812 TM-ABC transporter signature motif; other site 381666009813 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 381666009814 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 381666009815 dimerization interface [polypeptide binding]; other site 381666009816 ligand binding site [chemical binding]; other site 381666009817 LytB protein; Region: LYTB; cl00507 381666009818 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 381666009819 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 381666009820 hypothetical protein; Reviewed; Region: PRK00024 381666009821 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 381666009822 MPN+ (JAMM) motif; other site 381666009823 Zinc-binding site [ion binding]; other site 381666009824 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 381666009825 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 381666009826 L-aspartate oxidase; Provisional; Region: PRK09077 381666009827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666009828 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 381666009829 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 381666009830 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 381666009831 dimerization interface [polypeptide binding]; other site 381666009832 active site 381666009833 Quinolinate synthetase A protein; Region: NadA; cl00420 381666009834 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 381666009835 Di-iron ligands [ion binding]; other site 381666009836 Transposase; Region: DDE_Tnp_ISL3; pfam01610 381666009837 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 381666009838 Mechanosensitive ion channel; Region: MS_channel; pfam00924 381666009839 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 381666009840 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; cl16911 381666009841 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 381666009842 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 381666009843 active site 381666009844 cosubstrate binding site; other site 381666009845 substrate binding site [chemical binding]; other site 381666009846 catalytic site [active] 381666009847 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666009848 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666009849 active site 381666009850 phosphorylation site [posttranslational modification] 381666009851 intermolecular recognition site; other site 381666009852 dimerization interface [polypeptide binding]; other site 381666009853 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 381666009854 DNA binding residues [nucleotide binding] 381666009855 dimerization interface [polypeptide binding]; other site 381666009856 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 381666009857 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 381666009858 ATP binding site [chemical binding]; other site 381666009859 Mg2+ binding site [ion binding]; other site 381666009860 G-X-G motif; other site 381666009861 Response regulator receiver domain; Region: Response_reg; pfam00072 381666009862 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666009863 active site 381666009864 phosphorylation site [posttranslational modification] 381666009865 intermolecular recognition site; other site 381666009866 dimerization interface [polypeptide binding]; other site 381666009867 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 381666009868 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 381666009869 active site 381666009870 Riboflavin kinase; Region: Flavokinase; cl03312 381666009871 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 381666009872 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 381666009873 active site 381666009874 HIGH motif; other site 381666009875 nucleotide binding site [chemical binding]; other site 381666009876 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 381666009877 active site 381666009878 KMSKS motif; other site 381666009879 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 381666009880 tRNA binding surface [nucleotide binding]; other site 381666009881 anticodon binding site; other site 381666009882 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 381666009883 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 381666009884 lipoprotein signal peptidase; Provisional; Region: PRK14787 381666009885 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 381666009886 Flavoprotein; Region: Flavoprotein; cl08021 381666009887 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 381666009888 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 381666009889 trimer interface [polypeptide binding]; other site 381666009890 active site 381666009891 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 381666009892 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666009893 NMT1-like family; Region: NMT1_2; cl15260 381666009894 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 381666009895 Clp amino terminal domain; Region: Clp_N; pfam02861 381666009896 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 381666009897 Walker A motif; other site 381666009898 ATP binding site [chemical binding]; other site 381666009899 Walker B motif; other site 381666009900 arginine finger; other site 381666009901 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 381666009902 Walker A motif; other site 381666009903 ATP binding site [chemical binding]; other site 381666009904 Walker B motif; other site 381666009905 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 381666009906 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 381666009907 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 protein; Region: CSP_CDS; cd04458 381666009908 DNA-binding site [nucleotide binding]; DNA binding site 381666009909 RNA-binding motif; other site 381666009910 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 381666009911 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666009912 isocitrate dehydrogenase; Validated; Region: PRK07362 381666009913 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 381666009914 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 381666009915 pseudouridine synthase; Region: TIGR00093 381666009916 active site 381666009917 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 381666009918 Protein of unknown function (DUF520); Region: DUF520; cl00723 381666009919 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 381666009920 FAD binding domain; Region: FAD_binding_4; pfam01565 381666009921 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 381666009922 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 381666009923 ornithine carbamoyltransferase; Provisional; Region: PRK00779 381666009924 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 381666009925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666009926 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 381666009927 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 381666009928 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 381666009929 Uncharacterized conserved protein [Function unknown]; Region: COG2912 381666009930 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 381666009931 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 381666009932 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 381666009933 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 381666009934 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 381666009935 ATP binding site [chemical binding]; other site 381666009936 Mg2+ binding site [ion binding]; other site 381666009937 G-X-G motif; other site 381666009938 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 381666009939 ATP binding site [chemical binding]; other site 381666009940 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 381666009941 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666009942 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 381666009943 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666009944 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666009945 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666009946 DNA-binding site [nucleotide binding]; DNA binding site 381666009947 FCD domain; Region: FCD; cl11656 381666009948 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666009949 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 381666009950 Amidase; Region: Amidase; cl11426 381666009951 dihydropyrimidinase; Provisional; Region: PRK13404 381666009952 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 381666009953 tetramer interface [polypeptide binding]; other site 381666009954 active site 381666009955 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666009956 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 381666009957 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 381666009958 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 381666009959 dimerization interface [polypeptide binding]; other site 381666009960 putative ATP binding site [chemical binding]; other site 381666009961 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 381666009962 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666009963 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 381666009964 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 381666009965 poly(A) polymerase; Region: pcnB; TIGR01942 381666009966 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 381666009967 active site 381666009968 NTP binding site [chemical binding]; other site 381666009969 metal binding triad [ion binding]; metal-binding site 381666009970 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 381666009971 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 381666009972 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 381666009973 catalytic center binding site [active] 381666009974 ATP binding site [chemical binding]; other site 381666009975 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 381666009976 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 381666009977 Substrate-binding site [chemical binding]; other site 381666009978 Substrate specificity [chemical binding]; other site 381666009979 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 381666009980 oligomerization interface [polypeptide binding]; other site 381666009981 active site 381666009982 metal binding site [ion binding]; metal-binding site 381666009983 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 381666009984 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666009985 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 381666009986 Walker A/P-loop; other site 381666009987 ATP binding site [chemical binding]; other site 381666009988 Q-loop/lid; other site 381666009989 ABC transporter signature motif; other site 381666009990 Walker B; other site 381666009991 D-loop; other site 381666009992 H-loop/switch region; other site 381666009993 chorismate binding enzyme; Region: Chorismate_bind; cl10555 381666009994 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 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 381666009995 substrate-cofactor binding pocket; other site 381666009996 homodimer interface [polypeptide binding]; other site 381666009997 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666009998 catalytic residue [active] 381666009999 chaperone protein DnaJ; Provisional; Region: PRK10767 381666010000 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 381666010001 HSP70 interaction site [polypeptide binding]; other site 381666010002 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 381666010003 substrate binding site [polypeptide binding]; other site 381666010004 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 381666010005 Zn binding sites [ion binding]; other site 381666010006 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 381666010007 dimer interface [polypeptide binding]; other site 381666010008 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 381666010009 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 381666010010 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 381666010011 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 381666010012 FAD binding domain; Region: FAD_binding_4; pfam01565 381666010013 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666010014 Helix-turn-helix domains; Region: HTH; cl00088 381666010015 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 381666010016 dimerization interface [polypeptide binding]; other site 381666010017 substrate binding pocket [chemical binding]; other site 381666010018 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 381666010019 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666010020 Coenzyme A binding pocket [chemical binding]; other site 381666010021 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 381666010022 FAD binding domain; Region: FAD_binding_4; pfam01565 381666010023 Ion transport protein; Region: Ion_trans; pfam00520 381666010024 Ion channel; Region: Ion_trans_2; cl11596 381666010025 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 381666010026 FAD binding domain; Region: FAD_binding_4; pfam01565 381666010027 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 381666010028 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 381666010029 Cysteine-rich domain; Region: CCG; pfam02754 381666010030 Cysteine-rich domain; Region: CCG; pfam02754 381666010031 LrgA family; Region: LrgA; cl00608 381666010032 LrgB-like family; Region: LrgB; cl00596 381666010033 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 381666010034 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666010035 Predicted transcriptional regulator [Transcription]; Region: COG2378 381666010036 Helix-turn-helix domains; Region: HTH; cl00088 381666010037 WYL domain; Region: WYL; cl14852 381666010038 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 381666010039 catalytic residues [active] 381666010040 dimer interface [polypeptide binding]; other site 381666010041 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 381666010042 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 381666010043 Walker A motif; other site 381666010044 ATP binding site [chemical binding]; other site 381666010045 Walker B motif; other site 381666010046 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 381666010047 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 381666010048 Walker A motif; other site 381666010049 ATP binding site [chemical binding]; other site 381666010050 Walker B motif; other site 381666010051 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 381666010052 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 381666010053 catalytic residue [active] 381666010054 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 381666010055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666010056 UbiA prenyltransferase family; Region: UbiA; cl00337 381666010057 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 381666010058 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 381666010059 dimerization interface [polypeptide binding]; other site 381666010060 DPS ferroxidase diiron center [ion binding]; other site 381666010061 ion pore; other site 381666010062 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 381666010063 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 381666010064 tetramer interface [polypeptide binding]; other site 381666010065 heme binding pocket [chemical binding]; other site 381666010066 NADPH binding site [chemical binding]; other site 381666010067 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666010068 Helix-turn-helix domains; Region: HTH; cl00088 381666010069 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 381666010070 dimerization interface [polypeptide binding]; other site 381666010071 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 381666010072 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 381666010073 generic binding surface II; other site 381666010074 ssDNA binding site; other site 381666010075 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 381666010076 ATP binding site [chemical binding]; other site 381666010077 putative Mg++ binding site [ion binding]; other site 381666010078 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 381666010079 nucleotide binding region [chemical binding]; other site 381666010080 ATP-binding site [chemical binding]; other site 381666010081 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 381666010082 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 381666010083 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 381666010084 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 381666010085 Preprotein translocase subunit; Region: YajC; cl00806 381666010086 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 381666010087 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 381666010088 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 381666010089 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 381666010090 Protein export membrane protein; Region: SecD_SecF; cl14618 381666010091 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 381666010092 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 381666010093 Protein export membrane protein; Region: SecD_SecF; cl14618 381666010094 Response regulator receiver domain; Region: Response_reg; pfam00072 381666010095 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666010096 active site 381666010097 phosphorylation site [posttranslational modification] 381666010098 intermolecular recognition site; other site 381666010099 dimerization interface [polypeptide binding]; other site 381666010100 Response regulator receiver domain; Region: Response_reg; pfam00072 381666010101 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666010102 active site 381666010103 phosphorylation site [posttranslational modification] 381666010104 intermolecular recognition site; other site 381666010105 dimerization interface [polypeptide binding]; other site 381666010106 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 381666010107 dimer interface [polypeptide binding]; other site 381666010108 phosphorylation site [posttranslational modification] 381666010109 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 381666010110 ATP binding site [chemical binding]; other site 381666010111 Mg2+ binding site [ion binding]; other site 381666010112 G-X-G motif; other site 381666010113 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666010114 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 381666010115 dimer interface [polypeptide binding]; other site 381666010116 phosphorylation site [posttranslational modification] 381666010117 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 381666010118 ATP binding site [chemical binding]; other site 381666010119 Mg2+ binding site [ion binding]; other site 381666010120 G-X-G motif; other site 381666010121 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; cl16911 381666010122 YceI-like domain; Region: YceI; cl01001 381666010123 YceI-like domain; Region: YceI; cl01001 381666010124 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 381666010125 adenylosuccinate lyase; Provisional; Region: PRK09285 381666010126 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 381666010127 tetramer interface [polypeptide binding]; other site 381666010128 active site 381666010129 putative glutathione S-transferase; Provisional; Region: PRK10357 381666010130 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 381666010131 putative C-terminal domain interface [polypeptide binding]; other site 381666010132 putative GSH binding site (G-site) [chemical binding]; other site 381666010133 putative dimer interface [polypeptide binding]; other site 381666010134 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 381666010135 dimer interface [polypeptide binding]; other site 381666010136 N-terminal domain interface [polypeptide binding]; other site 381666010137 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 381666010138 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 381666010139 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 381666010140 nudix motif; other site 381666010141 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 381666010142 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 381666010143 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 381666010144 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 381666010145 tetramerization interface [polypeptide binding]; other site 381666010146 active site 381666010147 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 381666010148 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 381666010149 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 381666010150 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 381666010151 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666010152 active site 381666010153 phosphorylation site [posttranslational modification] 381666010154 intermolecular recognition site; other site 381666010155 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 381666010156 THUMP domain; Region: THUMP; cl12076 381666010157 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; cl16911 381666010158 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 381666010159 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 381666010160 putative catalytic residue [active] 381666010161 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 381666010162 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 381666010163 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 381666010164 putative catalytic cysteine [active] 381666010165 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 381666010166 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 381666010167 Lipopolysaccharide-assembly; Region: LptE; cl01125 381666010168 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 381666010169 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 381666010170 HIGH motif; other site 381666010171 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 381666010172 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 381666010173 active site 381666010174 KMSKS motif; other site 381666010175 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 381666010176 tRNA binding surface [nucleotide binding]; other site 381666010177 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 381666010178 Transposase; Region: DDE_Tnp_ISL3; pfam01610 381666010179 dihydrodipicolinate reductase; Provisional; Region: PRK00048 381666010180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666010181 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 381666010182 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 381666010183 ferric uptake regulator; Provisional; Region: fur; PRK09462 381666010184 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 381666010185 metal binding site 2 [ion binding]; metal-binding site 381666010186 putative DNA binding helix; other site 381666010187 metal binding site 1 [ion binding]; metal-binding site 381666010188 dimer interface [polypeptide binding]; other site 381666010189 structural Zn2+ binding site [ion binding]; other site 381666010190 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 381666010191 Helix-turn-helix domains; Region: HTH; cl00088 381666010192 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 381666010193 putative substrate binding pocket [chemical binding]; other site 381666010194 putative dimerization interface [polypeptide binding]; other site 381666010195 Flavin Reductases; Region: FlaRed; cl00801 381666010196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666010197 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 381666010198 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 381666010199 transketolase; Reviewed; Region: PRK12753 381666010200 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 381666010201 TPP-binding site [chemical binding]; other site 381666010202 dimer interface [polypeptide binding]; other site 381666010203 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 381666010204 PYR/PP interface [polypeptide binding]; other site 381666010205 dimer interface [polypeptide binding]; other site 381666010206 TPP binding site [chemical binding]; other site 381666010207 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 381666010208 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 381666010209 putative dimer interface [polypeptide binding]; other site 381666010210 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666010211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 381666010212 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 381666010213 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 381666010214 valyl-tRNA synthetase-like protein; Provisional; Region: PTZ00419 381666010215 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 381666010216 putative RNAase interaction site [polypeptide binding]; other site 381666010217 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 381666010218 active site 381666010219 barstar interaction site; other site 381666010220 Malate dehydrogenase enzyme; Region: Malate_DH; pfam12434 381666010221 malic enzyme; Reviewed; Region: PRK12862 381666010222 Malic enzyme, N-terminal domain; Region: malic; pfam00390 381666010223 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 381666010224 putative NAD(P) binding site [chemical binding]; other site 381666010225 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 381666010226 thiamine monophosphate kinase; Provisional; Region: PRK05731 381666010227 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 381666010228 ATP binding site [chemical binding]; other site 381666010229 dimerization interface [polypeptide binding]; other site 381666010230 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 381666010231 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 381666010232 tetramer interfaces [polypeptide binding]; other site 381666010233 beta-alpha-beta structure motif; other site 381666010234 binuclear metal-binding site [ion binding]; other site 381666010235 Competence-damaged protein; Region: CinA; cl00666 381666010236 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 contains two...; Region: OMP_decarboxylase_like; cd04725 381666010237 active site 381666010238 dimer interface [polypeptide binding]; other site 381666010239 EamA-like transporter family; Region: EamA; cl01037 381666010240 EamA-like transporter family; Region: EamA; cl01037 381666010241 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 381666010242 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 381666010243 Transglycosylase; Region: Transgly; cl07896 381666010244 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 381666010245 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 381666010246 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 381666010247 shikimate binding site; other site 381666010248 NAD(P) binding site [chemical binding]; other site 381666010249 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 381666010250 Gram-negative bacterial tonB protein; Region: TonB; cl10048 381666010251 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 381666010252 RNB domain; Region: RNB; pfam00773 381666010253 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666010254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666010255 NAD(P) binding site [chemical binding]; other site 381666010256 active site 381666010257 UTRA domain; Region: UTRA; cl01230 381666010258 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 381666010259 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 381666010260 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 381666010261 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 381666010262 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 381666010263 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 381666010264 catalytic residues [active] 381666010265 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 381666010266 trimer interface [polypeptide binding]; other site 381666010267 active site 381666010268 dimer interface [polypeptide binding]; other site 381666010269 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 381666010270 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 381666010271 carboxyltransferase (CT) interaction site; other site 381666010272 biotinylation site [posttranslational modification]; other site 381666010273 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 381666010274 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666010275 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666010276 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 381666010277 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 381666010278 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; cl16911 381666010279 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 381666010280 S-adenosylmethionine binding site [chemical binding]; other site 381666010281 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 381666010282 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 381666010283 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 381666010284 dimer interface [polypeptide binding]; other site 381666010285 catalytic triad [active] 381666010286 peroxidatic and resolving cysteines [active] 381666010287 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 381666010288 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 381666010289 substrate binding site [chemical binding]; other site 381666010290 ATP binding site [chemical binding]; other site 381666010291 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 381666010292 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 381666010293 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 381666010294 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 381666010295 N-terminal plug; other site 381666010296 ligand-binding site [chemical binding]; other site 381666010297 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666010298 Helix-turn-helix domains; Region: HTH; cl00088 381666010299 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 381666010300 dimerization interface [polypeptide binding]; other site 381666010301 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 381666010302 Citrate transporter; Region: CitMHS; pfam03600 381666010303 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 381666010304 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 381666010305 active site 381666010306 catalytic tetrad [active] 381666010307 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 381666010308 Putative exonuclease, RdgC; Region: RdgC; cl01122 381666010309 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 381666010310 active site 381666010311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666010312 NMT1-like family; Region: NMT1_2; cl15260 381666010313 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666010314 Helix-turn-helix domains; Region: HTH; cl00088 381666010315 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 381666010316 dimerization interface [polypeptide binding]; other site 381666010317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666010318 NMT1-like family; Region: NMT1_2; cl15260 381666010319 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 381666010320 intersubunit interface [polypeptide binding]; other site 381666010321 active site 381666010322 Zn2+ binding site [ion binding]; other site 381666010323 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 381666010324 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 381666010325 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 381666010326 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666010327 substrate binding pocket [chemical binding]; other site 381666010328 membrane-bound complex binding site; other site 381666010329 hinge residues; other site 381666010330 Cupin domain; Region: Cupin_2; cl09118 381666010331 enoyl-CoA hydratase; Provisional; Region: PRK06144 381666010332 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 381666010333 substrate binding site [chemical binding]; other site 381666010334 oxyanion hole (OAH) forming residues; other site 381666010335 trimer interface [polypeptide binding]; other site 381666010336 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666010337 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666010338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666010339 NMT1-like family; Region: NMT1_2; cl15260 381666010340 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666010341 Helix-turn-helix domains; Region: HTH; cl00088 381666010342 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 381666010343 dimerization interface [polypeptide binding]; other site 381666010344 PAAR motif; Region: PAAR_motif; cl15808 381666010345 Helix-turn-helix domains; Region: HTH; cl00088 381666010346 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 381666010347 substrate binding site [chemical binding]; other site 381666010348 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666010349 PAAR motif; Region: PAAR_motif; cl15808 381666010350 Thioesterase domain; Region: Thioesterase; pfam00975 381666010351 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 381666010352 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666010353 Helix-turn-helix domains; Region: HTH; cl00088 381666010354 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 381666010355 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666010356 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666010357 Coenzyme A binding pocket [chemical binding]; other site 381666010358 Phosphotransferase enzyme family; Region: APH; pfam01636 381666010359 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666010360 active site 381666010361 ATP binding site [chemical binding]; other site 381666010362 substrate binding site [chemical binding]; other site 381666010363 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 381666010364 Ligand Binding Site [chemical binding]; other site 381666010365 Molecular Tunnel; other site 381666010366 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666010367 Helix-turn-helix domains; Region: HTH; cl00088 381666010368 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 381666010369 dimerization interface [polypeptide binding]; other site 381666010370 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 381666010371 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 381666010372 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 381666010373 Walker A/P-loop; other site 381666010374 ATP binding site [chemical binding]; other site 381666010375 Q-loop/lid; other site 381666010376 ABC transporter signature motif; other site 381666010377 Walker B; other site 381666010378 D-loop; other site 381666010379 H-loop/switch region; other site 381666010380 PAAR motif; Region: PAAR_motif; cl15808 381666010381 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 381666010382 putative metal binding site [ion binding]; other site 381666010383 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 381666010384 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 381666010385 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666010386 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 381666010387 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 381666010388 TPR motif; other site 381666010389 binding surface 381666010390 DNA-sulfur modification-associated; Region: DndB; cl14002 381666010391 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 381666010392 dimer interface [polypeptide binding]; other site 381666010393 putative radical transfer pathway; other site 381666010394 diiron center [ion binding]; other site 381666010395 tyrosyl radical; other site 381666010396 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 381666010397 ATP cone domain; Region: ATP-cone; pfam03477 381666010398 Class I ribonucleotide reductase; Region: RNR_I; cd01679 381666010399 active site 381666010400 dimer interface [polypeptide binding]; other site 381666010401 catalytic residues [active] 381666010402 effector binding site; other site 381666010403 R2 peptide binding site; other site 381666010404 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 381666010405 amidase catalytic site [active] 381666010406 Zn binding residues [ion binding]; other site 381666010407 substrate binding site [chemical binding]; other site 381666010408 Response regulator receiver domain; Region: Response_reg; pfam00072 381666010409 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666010410 active site 381666010411 phosphorylation site [posttranslational modification] 381666010412 intermolecular recognition site; other site 381666010413 dimerization interface [polypeptide binding]; other site 381666010414 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 381666010415 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 381666010416 Walker A motif; other site 381666010417 ATP binding site [chemical binding]; other site 381666010418 Walker B motif; other site 381666010419 arginine finger; other site 381666010420 Helix-turn-helix domains; Region: HTH; cl00088 381666010421 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 381666010422 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 381666010423 dimer interface [polypeptide binding]; other site 381666010424 phosphorylation site [posttranslational modification] 381666010425 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 381666010426 ATP binding site [chemical binding]; other site 381666010427 Mg2+ binding site [ion binding]; other site 381666010428 G-X-G motif; other site 381666010429 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 381666010430 signal recognition particle protein; Provisional; Region: PRK10867 381666010431 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 381666010432 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 381666010433 P loop; other site 381666010434 GTP binding site [chemical binding]; other site 381666010435 Signal peptide binding domain; Region: SRP_SPB; pfam02978 381666010436 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666010437 active site 381666010438 LysE type translocator; Region: LysE; cl00565 381666010439 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 381666010440 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 381666010441 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 catalyze...; Region: LT_GEWL; cd00254 381666010442 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666010443 catalytic residue [active] 381666010444 prolyl-tRNA synthetase; Provisional; Region: PRK09194 381666010445 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 formation of...; Region: ProRS_core_prok; cd00779 381666010446 dimer interface [polypeptide binding]; other site 381666010447 motif 1; other site 381666010448 active site 381666010449 motif 2; other site 381666010450 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 381666010451 putative deacylase active site [active] 381666010452 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 attaches...; Region: class_II_aaRS-like_core; cl00268 381666010453 active site 381666010454 motif 3; other site 381666010455 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 381666010456 anticodon binding site; other site 381666010457 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 381666010458 putative active site [active] 381666010459 Ap4A binding site [chemical binding]; other site 381666010460 nudix motif; other site 381666010461 putative metal binding site [ion binding]; other site 381666010462 CNP1-like family; Region: CNP1; pfam08750 381666010463 gamma-glutamyl kinase; Provisional; Region: PRK05429 381666010464 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 381666010465 nucleotide binding site [chemical binding]; other site 381666010466 homotetrameric interface [polypeptide binding]; other site 381666010467 putative phosphate binding site [ion binding]; other site 381666010468 putative allosteric binding site; other site 381666010469 PUA domain; Region: PUA; cl00607 381666010470 GTPase CgtA; Reviewed; Region: obgE; PRK12299 381666010471 GTP1/OBG; Region: GTP1_OBG; pfam01018 381666010472 Obg GTPase; Region: Obg; cd01898 381666010473 G1 box; other site 381666010474 GTP/Mg2+ binding site [chemical binding]; other site 381666010475 Switch I region; other site 381666010476 G2 box; other site 381666010477 G3 box; other site 381666010478 Switch II region; other site 381666010479 G4 box; other site 381666010480 G5 box; other site 381666010481 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 381666010482 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 381666010483 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 381666010484 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 381666010485 substrate binding pocket [chemical binding]; other site 381666010486 chain length determination region; other site 381666010487 substrate-Mg2+ binding site; other site 381666010488 catalytic residues [active] 381666010489 aspartate-rich region 1; other site 381666010490 active site lid residues [active] 381666010491 aspartate-rich region 2; other site 381666010492 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 381666010493 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 381666010494 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 381666010495 Walker A motif; other site 381666010496 ATP binding site [chemical binding]; other site 381666010497 Walker B motif; other site 381666010498 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 381666010499 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 381666010500 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 381666010501 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 381666010502 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 381666010503 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 381666010504 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 381666010505 CoA-binding site [chemical binding]; other site 381666010506 ATP-binding [chemical binding]; other site 381666010507 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 381666010508 OPT oligopeptide transporter protein; Region: OPT; cl14607 381666010509 oligopeptide transporters, OPT superfamily; Region: OPT_sfam; TIGR00728 381666010510 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 381666010511 active site 381666010512 8-oxo-dGMP binding site [chemical binding]; other site 381666010513 nudix motif; other site 381666010514 metal binding site [ion binding]; metal-binding site 381666010515 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 381666010516 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 381666010517 Walker A motif; other site 381666010518 ATP binding site [chemical binding]; other site 381666010519 Walker B motif; other site 381666010520 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 381666010521 heterotetramer interface [polypeptide binding]; other site 381666010522 active site pocket [active] 381666010523 cleavage site 381666010524 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 381666010525 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 381666010526 SEC-C motif; Region: SEC-C; pfam02810 381666010527 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 381666010528 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 381666010529 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 381666010530 catalytic triad [active] 381666010531 dimer interface [polypeptide binding]; other site 381666010532 cell division protein FtsZ; Validated; Region: PRK09330 381666010533 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 381666010534 nucleotide binding site [chemical binding]; other site 381666010535 SulA interaction site; other site 381666010536 cell division protein FtsA; Region: ftsA; TIGR01174 381666010537 Cell division protein FtsA; Region: FtsA; cl11496 381666010538 Cell division protein FtsA; Region: FtsA; cl11496 381666010539 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 381666010540 Cell division protein FtsQ; Region: FtsQ; pfam03799 381666010541 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 381666010542 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 381666010543 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666010544 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 381666010545 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 381666010546 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 381666010547 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 381666010548 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 381666010549 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 381666010550 active site 381666010551 homodimer interface [polypeptide binding]; other site 381666010552 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 381666010553 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 381666010554 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 381666010555 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 381666010556 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 381666010557 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 381666010558 Mg++ binding site [ion binding]; other site 381666010559 putative catalytic motif [active] 381666010560 putative substrate binding site [chemical binding]; other site 381666010561 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 381666010562 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 381666010563 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 381666010564 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 381666010565 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 381666010566 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 381666010567 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 381666010568 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 381666010569 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 381666010570 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666010571 Septum formation initiator; Region: DivIC; cl11433 381666010572 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 381666010573 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; cl16911 381666010574 MraZ protein; Region: MraZ; pfam02381 381666010575 MraZ protein; Region: MraZ; pfam02381 381666010576 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 381666010577 diiron binding motif [ion binding]; other site 381666010578 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 381666010579 trimer interface [polypeptide binding]; other site 381666010580 eyelet of channel; other site 381666010581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666010582 NMT1-like family; Region: NMT1_2; cl15260 381666010583 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666010584 Helix-turn-helix domains; Region: HTH; cl00088 381666010585 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 381666010586 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 381666010587 AMP-binding enzyme; Region: AMP-binding; cl15778 381666010588 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666010589 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666010590 Helix-turn-helix domains; Region: HTH; cl00088 381666010591 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666010592 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 381666010593 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 381666010594 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 381666010595 carboxyltransferase (CT) interaction site; other site 381666010596 biotinylation site [posttranslational modification]; other site 381666010597 Carboxyl transferase domain; Region: Carboxyl_trans; pfam01039 381666010598 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 381666010599 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 381666010600 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 381666010601 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 381666010602 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 381666010603 putative [4Fe-4S] binding site [ion binding]; other site 381666010604 putative molybdopterin cofactor binding site [chemical binding]; other site 381666010605 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 381666010606 putative molybdopterin cofactor binding site; other site 381666010607 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 381666010608 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 381666010609 putative ligand binding site [chemical binding]; other site 381666010610 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 381666010611 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666010612 Walker A/P-loop; other site 381666010613 ATP binding site [chemical binding]; other site 381666010614 Q-loop/lid; other site 381666010615 ABC transporter signature motif; other site 381666010616 Walker B; other site 381666010617 D-loop; other site 381666010618 H-loop/switch region; other site 381666010619 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666010620 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 381666010621 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666010622 Walker A/P-loop; other site 381666010623 ATP binding site [chemical binding]; other site 381666010624 Q-loop/lid; other site 381666010625 ABC transporter signature motif; other site 381666010626 Walker B; other site 381666010627 D-loop; other site 381666010628 H-loop/switch region; other site 381666010629 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666010630 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 381666010631 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 381666010632 putative PBP binding loops; other site 381666010633 dimer interface [polypeptide binding]; other site 381666010634 ABC-ATPase subunit interface; other site 381666010635 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 381666010636 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 381666010637 dimer interface [polypeptide binding]; other site 381666010638 conserved gate region; other site 381666010639 putative PBP binding loops; other site 381666010640 ABC-ATPase subunit interface; other site 381666010641 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 381666010642 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 381666010643 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 381666010644 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 381666010645 metal binding site [ion binding]; metal-binding site 381666010646 putative dimer interface [polypeptide binding]; other site 381666010647 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 381666010648 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 381666010649 enoyl-CoA hydratase; Provisional; Region: PRK05862 381666010650 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 381666010651 substrate binding site [chemical binding]; other site 381666010652 oxyanion hole (OAH) forming residues; other site 381666010653 trimer interface [polypeptide binding]; other site 381666010654 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 381666010655 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 381666010656 Walker A/P-loop; other site 381666010657 ATP binding site [chemical binding]; other site 381666010658 Q-loop/lid; other site 381666010659 ABC transporter signature motif; other site 381666010660 Walker B; other site 381666010661 D-loop; other site 381666010662 H-loop/switch region; other site 381666010663 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666010664 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 381666010665 dimer interface [polypeptide binding]; other site 381666010666 conserved gate region; other site 381666010667 putative PBP binding loops; other site 381666010668 ABC-ATPase subunit interface; other site 381666010669 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666010670 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 381666010671 substrate binding pocket [chemical binding]; other site 381666010672 membrane-bound complex binding site; other site 381666010673 hinge residues; other site 381666010674 enoyl-CoA hydratase; Provisional; Region: PRK08140 381666010675 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 381666010676 substrate binding site [chemical binding]; other site 381666010677 oxyanion hole (OAH) forming residues; other site 381666010678 trimer interface [polypeptide binding]; other site 381666010679 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 381666010680 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 381666010681 CoenzymeA binding site [chemical binding]; other site 381666010682 subunit interaction site [polypeptide binding]; other site 381666010683 PHB binding site; other site 381666010684 AMP-binding enzyme; Region: AMP-binding; cl15778 381666010685 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 381666010686 MltA specific insert domain; Region: MltA; cl08398 381666010687 3D domain; Region: 3D; cl01439 381666010688 Protein of unknown function (DUF525); Region: DUF525; cl01119 381666010689 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 381666010690 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 381666010691 substrate binding site [chemical binding]; other site 381666010692 hexamer interface [polypeptide binding]; other site 381666010693 metal binding site [ion binding]; metal-binding site 381666010694 phosphoglycolate phosphatase; Provisional; Region: PRK13222 381666010695 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 381666010696 motif II; other site 381666010697 anthranilate synthase component I; Provisional; Region: PRK13565 381666010698 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 381666010699 chorismate binding enzyme; Region: Chorismate_bind; cl10555 381666010700 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 381666010701 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 381666010702 glutamine binding [chemical binding]; other site 381666010703 catalytic triad [active] 381666010704 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 381666010705 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 381666010706 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 381666010707 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 381666010708 active site 381666010709 ribulose/triose binding site [chemical binding]; other site 381666010710 phosphate binding site [ion binding]; other site 381666010711 substrate (anthranilate) binding pocket [chemical binding]; other site 381666010712 product (indole) binding pocket [chemical binding]; other site 381666010713 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 381666010714 putative active site; other site 381666010715 putative triphosphate binding site [ion binding]; other site 381666010716 putative metal binding residues [ion binding]; other site 381666010717 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 381666010718 ligand binding site [chemical binding]; other site 381666010719 active site 381666010720 UGI interface [polypeptide binding]; other site 381666010721 catalytic site [active] 381666010722 Acylphosphatase; Region: Acylphosphatase; cl00551 381666010723 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 381666010724 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 381666010725 dimer interface [polypeptide binding]; other site 381666010726 conserved gate region; other site 381666010727 putative PBP binding loops; other site 381666010728 ABC-ATPase subunit interface; other site 381666010729 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 381666010730 dimer interface [polypeptide binding]; other site 381666010731 conserved gate region; other site 381666010732 putative PBP binding loops; other site 381666010733 ABC-ATPase subunit interface; other site 381666010734 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 381666010735 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 381666010736 Walker A/P-loop; other site 381666010737 ATP binding site [chemical binding]; other site 381666010738 Q-loop/lid; other site 381666010739 ABC transporter signature motif; other site 381666010740 Walker B; other site 381666010741 D-loop; other site 381666010742 H-loop/switch region; other site 381666010743 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 381666010744 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 381666010745 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 381666010746 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 381666010747 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 381666010748 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 381666010749 protein binding site [polypeptide binding]; other site 381666010750 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 381666010751 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 381666010752 NADP binding site [chemical binding]; other site 381666010753 dimer interface [polypeptide binding]; other site 381666010754 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 381666010755 dimerization domain [polypeptide binding]; other site 381666010756 dimer interface [polypeptide binding]; other site 381666010757 catalytic residues [active] 381666010758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666010759 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 381666010760 GTP-binding protein YchF; Reviewed; Region: PRK09601 381666010761 YchF GTPase; Region: YchF; cd01900 381666010762 G1 box; other site 381666010763 GTP/Mg2+ binding site [chemical binding]; other site 381666010764 Switch I region; other site 381666010765 G2 box; other site 381666010766 Switch II region; other site 381666010767 G3 box; other site 381666010768 G4 box; other site 381666010769 G5 box; other site 381666010770 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 381666010771 GDYXXLXY protein; Region: GDYXXLXY; cl02066 381666010772 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 381666010773 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 381666010774 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 381666010775 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 381666010776 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 381666010777 tRNA; other site 381666010778 putative tRNA binding site [nucleotide binding]; other site 381666010779 putative NADP binding site [chemical binding]; other site 381666010780 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 381666010781 peptide chain release factor 1; Validated; Region: prfA; PRK00591 381666010782 RF-1 domain; Region: RF-1; cl02875 381666010783 RF-1 domain; Region: RF-1; cl02875 381666010784 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 381666010785 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 381666010786 S-adenosylmethionine binding site [chemical binding]; other site 381666010787 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 381666010788 putative GSH binding site [chemical binding]; other site 381666010789 catalytic residues [active] 381666010790 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 381666010791 Flavoprotein; Region: Flavoprotein; cl08021 381666010792 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 381666010793 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666010794 NAD(P) binding site [chemical binding]; other site 381666010795 catalytic residues [active] 381666010796 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 381666010797 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666010798 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666010799 Helix-turn-helix domains; Region: HTH; cl00088 381666010800 AsnC family; Region: AsnC_trans_reg; pfam01037 381666010801 dihydrodipicolinate reductase; Provisional; Region: PRK00048 381666010802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666010803 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 381666010804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666010805 NMT1-like family; Region: NMT1_2; cl15260 381666010806 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 381666010807 AMP-binding enzyme; Region: AMP-binding; cl15778 381666010808 AMP-binding enzyme; Region: AMP-binding; cl15778 381666010809 LysR family transcriptional regulator; Provisional; Region: PRK14997 381666010810 Helix-turn-helix domains; Region: HTH; cl00088 381666010811 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 381666010812 putative effector binding pocket; other site 381666010813 dimerization interface [polypeptide binding]; other site 381666010814 Helix-turn-helix domains; Region: HTH; cl00088 381666010815 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 381666010816 MatE; Region: MatE; cl10513 381666010817 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666010818 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 381666010819 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666010820 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666010821 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 381666010822 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 381666010823 putative active site [active] 381666010824 putative metal binding site [ion binding]; other site 381666010825 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 381666010826 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 381666010827 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 381666010828 ABC transporter; Region: ABC_tran_2; pfam12848 381666010829 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 381666010830 Protein of unknown function DUF45; Region: DUF45; cl00636 381666010831 TM1410 hypothetical-related protein; Region: DUF297; cl00997 381666010832 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 381666010833 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 381666010834 active site 381666010835 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 381666010836 xanthine permease; Region: pbuX; TIGR03173 381666010837 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666010838 Helix-turn-helix domains; Region: HTH; cl00088 381666010839 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 381666010840 putative dimerization interface [polypeptide binding]; other site 381666010841 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 381666010842 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 381666010843 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666010844 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 381666010845 catalytic loop [active] 381666010846 iron binding site [ion binding]; other site 381666010847 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666010848 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 381666010849 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 381666010850 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666010851 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 381666010852 Flavoprotein; Region: Flavoprotein; cl08021 381666010853 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 381666010854 P-loop, Walker A motif; other site 381666010855 Base recognition motif; other site 381666010856 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 381666010857 (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 381666010858 active site 381666010859 catalytic site [active] 381666010860 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666010861 NMT1-like family; Region: NMT1_2; cl15260 381666010862 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666010863 Helix-turn-helix domains; Region: HTH; cl00088 381666010864 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 381666010865 putative dimerization interface [polypeptide binding]; other site 381666010866 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666010867 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666010868 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666010869 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666010870 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666010871 xanthine permease; Region: pbuX; TIGR03173 381666010872 amidohydrolase; Provisional; Region: PRK12393 381666010873 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 381666010874 active site 381666010875 putative substrate binding pocket [chemical binding]; other site 381666010876 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 381666010877 oligomeric interface; other site 381666010878 putative active site [active] 381666010879 homodimer interface [polypeptide binding]; other site 381666010880 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 381666010881 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 381666010882 NMT1-like family; Region: NMT1_2; cl15260 381666010883 amidase; Provisional; Region: PRK07487 381666010884 Amidase; Region: Amidase; cl11426 381666010885 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666010886 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666010887 DNA-binding site [nucleotide binding]; DNA binding site 381666010888 FCD domain; Region: FCD; cl11656 381666010889 2TM domain; Region: 2TM; pfam13239 381666010890 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 381666010891 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666010892 active site 381666010893 phosphorylation site [posttranslational modification] 381666010894 intermolecular recognition site; other site 381666010895 dimerization interface [polypeptide binding]; other site 381666010896 LytTr DNA-binding domain; Region: LytTR; cl04498 381666010897 2TM domain; Region: 2TM; pfam13239 381666010898 Histidine kinase; Region: His_kinase; pfam06580 381666010899 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 381666010900 Restriction endonuclease; Region: Mrr_cat; cl00516 381666010901 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 381666010902 ATP binding site [chemical binding]; other site 381666010903 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 381666010904 putative Mg++ binding site [ion binding]; other site 381666010905 Family description; Region: UvrD_C_2; cl15862 381666010906 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 381666010907 Stringent starvation protein B; Region: SspB; cl01120 381666010908 stringent starvation protein A; Provisional; Region: sspA; PRK09481 381666010909 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 381666010910 C-terminal domain interface [polypeptide binding]; other site 381666010911 putative GSH binding site (G-site) [chemical binding]; other site 381666010912 dimer interface [polypeptide binding]; other site 381666010913 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 381666010914 dimer interface [polypeptide binding]; other site 381666010915 N-terminal domain interface [polypeptide binding]; other site 381666010916 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 381666010917 cytochrome b; Provisional; Region: CYTB; MTH00145 381666010918 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 381666010919 Qi binding site; other site 381666010920 intrachain domain interface; other site 381666010921 interchain domain interface [polypeptide binding]; other site 381666010922 heme bH binding site [chemical binding]; other site 381666010923 heme bL binding site [chemical binding]; other site 381666010924 Qo binding site; other site 381666010925 Cytochrome b(C-terminus)/b6/petD: 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_C; cl00193 381666010926 interchain domain interface [polypeptide binding]; other site 381666010927 intrachain domain interface; other site 381666010928 Qi binding site; other site 381666010929 Cytochrome b(C-terminus)/b6/petD: 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_C; cl00193 381666010930 Qo binding site; other site 381666010931 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 381666010932 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 381666010933 [2Fe-2S] cluster binding site [ion binding]; other site 381666010934 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 381666010935 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 381666010936 Uncharacterized conserved protein [Function unknown]; Region: COG0327 381666010937 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 381666010938 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 381666010939 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 381666010940 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 381666010941 protein binding site [polypeptide binding]; other site 381666010942 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 381666010943 trimer interface [polypeptide binding]; other site 381666010944 eyelet of channel; other site 381666010945 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 381666010946 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 381666010947 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 381666010948 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 381666010949 nucleotide binding site/active site [active] 381666010950 HIT family signature motif; other site 381666010951 catalytic residue [active] 381666010952 Predicted membrane protein [Function unknown]; Region: COG3671 381666010953 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 381666010954 metal binding site [ion binding]; metal-binding site 381666010955 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 381666010956 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 381666010957 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 381666010958 substrate binding site [chemical binding]; other site 381666010959 glutamase interaction surface [polypeptide binding]; other site 381666010960 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 381666010961 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 381666010962 catalytic residues [active] 381666010963 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 381666010964 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 381666010965 putative active site [active] 381666010966 oxyanion strand; other site 381666010967 catalytic triad [active] 381666010968 MarC family integral membrane protein; Region: MarC; cl00919 381666010969 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 381666010970 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 381666010971 putative active site pocket [active] 381666010972 4-fold oligomerization interface [polypeptide binding]; other site 381666010973 metal binding residues [ion binding]; metal-binding site 381666010974 3-fold/trimer interface [polypeptide binding]; other site 381666010975 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 381666010976 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 381666010977 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666010978 homodimer interface [polypeptide binding]; other site 381666010979 catalytic residue [active] 381666010980 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 381666010981 histidinol dehydrogenase; Region: hisD; TIGR00069 381666010982 NAD binding site [chemical binding]; other site 381666010983 dimerization interface [polypeptide binding]; other site 381666010984 product binding site; other site 381666010985 substrate binding site [chemical binding]; other site 381666010986 zinc binding site [ion binding]; other site 381666010987 catalytic residues [active] 381666010988 ATP phosphoribosyltransferase; Region: HisG; cl15266 381666010989 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 381666010990 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 381666010991 hinge; other site 381666010992 active site 381666010993 BolA-like protein; Region: BolA; cl00386 381666010994 ABC-2 type transporter; Region: ABC2_membrane; cl11417 381666010995 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 381666010996 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 381666010997 Walker A/P-loop; other site 381666010998 ATP binding site [chemical binding]; other site 381666010999 Q-loop/lid; other site 381666011000 ABC transporter signature motif; other site 381666011001 Walker B; other site 381666011002 D-loop; other site 381666011003 H-loop/switch region; other site 381666011004 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 381666011005 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 381666011006 VacJ like lipoprotein; Region: VacJ; cl01073 381666011007 mce related protein; Region: MCE; pfam02470 381666011008 Permease; Region: Permease; cl00510 381666011009 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 381666011010 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 381666011011 Walker A/P-loop; other site 381666011012 ATP binding site [chemical binding]; other site 381666011013 Q-loop/lid; other site 381666011014 ABC transporter signature motif; other site 381666011015 Walker B; other site 381666011016 D-loop; other site 381666011017 H-loop/switch region; other site 381666011018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666011019 NMT1-like family; Region: NMT1_2; cl15260 381666011020 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 381666011021 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666011022 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 381666011023 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 381666011024 active site 381666011025 dimer interface [polypeptide binding]; other site 381666011026 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 381666011027 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 381666011028 active site 381666011029 FMN binding site [chemical binding]; other site 381666011030 substrate binding site [chemical binding]; other site 381666011031 3Fe-4S cluster binding site [ion binding]; other site 381666011032 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 381666011033 domain interface; other site 381666011034 Transposase IS200 like; Region: Y1_Tnp; cl00848 381666011035 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 381666011036 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 381666011037 Zn2+ binding site [ion binding]; other site 381666011038 Mg2+ binding site [ion binding]; other site 381666011039 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 381666011040 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 381666011041 active site 381666011042 dimer interface [polypeptide binding]; other site 381666011043 metal binding site [ion binding]; metal-binding site 381666011044 shikimate kinase; Reviewed; Region: aroK; PRK00131 381666011045 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 381666011046 ADP binding site [chemical binding]; other site 381666011047 magnesium binding site [ion binding]; other site 381666011048 putative shikimate binding site; other site 381666011049 AMIN domain; Region: AMIN; pfam11741 381666011050 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 381666011051 Secretin and TonB N terminus short domain; Region: STN; cl06624 381666011052 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 381666011053 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 381666011054 Pilus assembly protein, PilP; Region: PilP; pfam04351 381666011055 Pilus assembly protein, PilO; Region: PilO; cl01234 381666011056 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 381666011057 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 381666011058 Competence protein A; Region: Competence_A; pfam11104 381666011059 Cell division protein FtsA; Region: FtsA; cl11496 381666011060 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 381666011061 Transglycosylase; Region: Transgly; cl07896 381666011062 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666011063 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cl00238 381666011064 putative iron binding site [ion binding]; other site 381666011065 diaminopimelate decarboxylase; Region: lysA; TIGR01048 381666011066 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 381666011067 active site 381666011068 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 381666011069 substrate binding site [chemical binding]; other site 381666011070 catalytic residues [active] 381666011071 dimer interface [polypeptide binding]; other site 381666011072 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 381666011073 TMAO/DMSO reductase; Reviewed; Region: PRK05363 381666011074 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 381666011075 Moco binding site; other site 381666011076 metal coordination site [ion binding]; other site 381666011077 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 381666011078 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 381666011079 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666011080 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 381666011081 DNA binding residues [nucleotide binding] 381666011082 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 381666011083 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 381666011084 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 381666011085 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 381666011086 Cytochrome c; Region: Cytochrom_C; cl11414 381666011087 Cytochrome c; Region: Cytochrom_C; cl11414 381666011088 Predicted GTPase [General function prediction only]; Region: COG0218 381666011089 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 381666011090 G1 box; other site 381666011091 GTP/Mg2+ binding site [chemical binding]; other site 381666011092 Switch I region; other site 381666011093 G2 box; other site 381666011094 G3 box; other site 381666011095 Switch II region; other site 381666011096 G4 box; other site 381666011097 G5 box; other site 381666011098 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 381666011099 dimer interface [polypeptide binding]; other site 381666011100 active site 381666011101 aspartate-rich active site metal binding site; other site 381666011102 allosteric magnesium binding site [ion binding]; other site 381666011103 Schiff base residues; other site 381666011104 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 381666011105 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 381666011106 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 381666011107 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 381666011108 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 381666011109 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 381666011110 DsbD alpha interface [polypeptide binding]; other site 381666011111 catalytic residues [active] 381666011112 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 381666011113 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 381666011114 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 381666011115 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 381666011116 alphaNTD homodimer interface [polypeptide binding]; other site 381666011117 alphaNTD - beta interaction site [polypeptide binding]; other site 381666011118 alphaNTD - beta' interaction site [polypeptide binding]; other site 381666011119 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 381666011120 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 381666011121 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 381666011122 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 381666011123 RNA binding surface [nucleotide binding]; other site 381666011124 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 381666011125 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 381666011126 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 381666011127 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 381666011128 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 381666011129 rRNA binding site [nucleotide binding]; other site 381666011130 predicted 30S ribosome binding site; other site 381666011131 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 381666011132 SecY translocase; Region: SecY; pfam00344 381666011133 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 381666011134 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 381666011135 23S rRNA binding site [nucleotide binding]; other site 381666011136 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 381666011137 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 381666011138 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 381666011139 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 381666011140 5S rRNA interface [nucleotide binding]; other site 381666011141 L27 interface [polypeptide binding]; other site 381666011142 23S rRNA interface [nucleotide binding]; other site 381666011143 L5 interface [polypeptide binding]; other site 381666011144 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 381666011145 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 381666011146 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 381666011147 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 381666011148 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 381666011149 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 381666011150 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 381666011151 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 381666011152 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 381666011153 KOW motif; Region: KOW; cl00354 381666011154 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 381666011155 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 381666011156 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 381666011157 23S rRNA interface [nucleotide binding]; other site 381666011158 putative translocon interaction site; other site 381666011159 signal recognition particle (SRP54) interaction site; other site 381666011160 L23 interface [polypeptide binding]; other site 381666011161 trigger factor interaction site; other site 381666011162 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 381666011163 23S rRNA interface [nucleotide binding]; other site 381666011164 5S rRNA interface [nucleotide binding]; other site 381666011165 putative antibiotic binding site [chemical binding]; other site 381666011166 L25 interface [polypeptide binding]; other site 381666011167 L27 interface [polypeptide binding]; other site 381666011168 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 381666011169 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 381666011170 G-X-X-G motif; other site 381666011171 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 381666011172 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 381666011173 putative translocon binding site; other site 381666011174 protein-rRNA interface [nucleotide binding]; other site 381666011175 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 381666011176 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 381666011177 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 381666011178 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 381666011179 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 381666011180 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 381666011181 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 381666011182 Flavin Reductases; Region: FlaRed; cl00801 381666011183 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 381666011184 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666011185 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 381666011186 classical (c) SDRs; Region: SDR_c; cd05233 381666011187 NAD(P) binding site [chemical binding]; other site 381666011188 active site 381666011189 Dienelactone hydrolase family; Region: DLH; pfam01738 381666011190 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; cl12031 381666011191 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 381666011192 Helix-turn-helix domain; Region: HTH_18; pfam12833 381666011193 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 381666011194 elongation factor Tu; Reviewed; Region: PRK00049 381666011195 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 381666011196 G1 box; other site 381666011197 GEF interaction site [polypeptide binding]; other site 381666011198 GTP/Mg2+ binding site [chemical binding]; other site 381666011199 Switch I region; other site 381666011200 G2 box; other site 381666011201 G3 box; other site 381666011202 Switch II region; other site 381666011203 G4 box; other site 381666011204 G5 box; other site 381666011205 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 381666011206 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 381666011207 Antibiotic Binding Site [chemical binding]; other site 381666011208 elongation factor G; Reviewed; Region: PRK00007 381666011209 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 381666011210 G1 box; other site 381666011211 putative GEF interaction site [polypeptide binding]; other site 381666011212 GTP/Mg2+ binding site [chemical binding]; other site 381666011213 Switch I region; other site 381666011214 G2 box; other site 381666011215 G3 box; other site 381666011216 Switch II region; other site 381666011217 G4 box; other site 381666011218 G5 box; other site 381666011219 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 381666011220 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 381666011221 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 381666011222 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 381666011223 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 381666011224 S17 interaction site [polypeptide binding]; other site 381666011225 S8 interaction site; other site 381666011226 16S rRNA interaction site [nucleotide binding]; other site 381666011227 streptomycin interaction site [chemical binding]; other site 381666011228 23S rRNA interaction site [nucleotide binding]; other site 381666011229 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 381666011230 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 381666011231 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 381666011232 ATP binding site [chemical binding]; other site 381666011233 putative Mg++ binding site [ion binding]; other site 381666011234 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 381666011235 nucleotide binding region [chemical binding]; other site 381666011236 ATP-binding site [chemical binding]; other site 381666011237 RQC domain; Region: RQC; cl09632 381666011238 HRDC domain; Region: HRDC; cl02578 381666011239 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 381666011240 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 381666011241 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 381666011242 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 381666011243 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 381666011244 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 381666011245 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 381666011246 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 381666011247 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 381666011248 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 381666011249 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 381666011250 DNA binding site [nucleotide binding] 381666011251 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 381666011252 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; cl04593 381666011253 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 381666011254 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 381666011255 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 381666011256 RPB11 interaction site [polypeptide binding]; other site 381666011257 RPB12 interaction site [polypeptide binding]; other site 381666011258 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 381666011259 RPB3 interaction site [polypeptide binding]; other site 381666011260 RPB1 interaction site [polypeptide binding]; other site 381666011261 RPB11 interaction site [polypeptide binding]; other site 381666011262 RPB10 interaction site [polypeptide binding]; other site 381666011263 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 381666011264 core dimer interface [polypeptide binding]; other site 381666011265 peripheral dimer interface [polypeptide binding]; other site 381666011266 L10 interface [polypeptide binding]; other site 381666011267 L11 interface [polypeptide binding]; other site 381666011268 putative EF-Tu interaction site [polypeptide binding]; other site 381666011269 putative EF-G interaction site [polypeptide binding]; other site 381666011270 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 381666011271 23S rRNA interface [nucleotide binding]; other site 381666011272 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 381666011273 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 381666011274 mRNA/rRNA interface [nucleotide binding]; other site 381666011275 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 381666011276 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 381666011277 23S rRNA interface [nucleotide binding]; other site 381666011278 L7/L12 interface [polypeptide binding]; other site 381666011279 putative thiostrepton binding site; other site 381666011280 L25 interface [polypeptide binding]; other site 381666011281 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 381666011282 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 381666011283 putative homodimer interface [polypeptide binding]; other site 381666011284 KOW motif; Region: KOW; cl00354 381666011285 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 381666011286 elongation factor Tu; Reviewed; Region: PRK00049 381666011287 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 381666011288 G1 box; other site 381666011289 GEF interaction site [polypeptide binding]; other site 381666011290 GTP/Mg2+ binding site [chemical binding]; other site 381666011291 Switch I region; other site 381666011292 G2 box; other site 381666011293 G3 box; other site 381666011294 Switch II region; other site 381666011295 G4 box; other site 381666011296 G5 box; other site 381666011297 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 381666011298 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 381666011299 Antibiotic Binding Site [chemical binding]; other site 381666011300 AMP-binding domain protein; Validated; Region: PRK08315 381666011301 AMP-binding enzyme; Region: AMP-binding; cl15778 381666011302 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666011303 Protein of unknown function, DUF488; Region: DUF488; cl01246 381666011304 Nucleoside recognition; Region: Gate; cl00486 381666011305 Nucleoside recognition; Region: Gate; cl00486 381666011306 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 381666011307 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 381666011308 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 381666011309 Ligand Binding Site [chemical binding]; other site 381666011310 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 381666011311 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 381666011312 Phenylacetic acid degradation B; Region: PaaB; cl01371 381666011313 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 381666011314 Domain of unknown function DUF59; Region: DUF59; cl00941 381666011315 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 381666011316 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 381666011317 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 381666011318 FAD binding pocket [chemical binding]; other site 381666011319 FAD binding motif [chemical binding]; other site 381666011320 phosphate binding motif [ion binding]; other site 381666011321 beta-alpha-beta structure motif; other site 381666011322 NAD(p) ribose binding residues [chemical binding]; other site 381666011323 NAD binding pocket [chemical binding]; other site 381666011324 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 381666011325 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 381666011326 catalytic loop [active] 381666011327 iron binding site [ion binding]; other site 381666011328 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 381666011329 Protein of unknown function; Region: DUF3658; pfam12395 381666011330 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666011331 Helix-turn-helix domains; Region: HTH; cl00088 381666011332 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 381666011333 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 381666011334 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 381666011335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666011336 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 381666011337 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666011338 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 381666011339 putative DNA binding site [nucleotide binding]; other site 381666011340 putative Zn2+ binding site [ion binding]; other site 381666011341 AsnC family; Region: AsnC_trans_reg; pfam01037 381666011342 EF-hand domain pair; Region: EF_hand_5; pfam13499 381666011343 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; cl08302 381666011344 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 381666011345 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 381666011346 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 381666011347 heme-binding site [chemical binding]; other site 381666011348 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 381666011349 FAD binding pocket [chemical binding]; other site 381666011350 FAD binding motif [chemical binding]; other site 381666011351 phosphate binding motif [ion binding]; other site 381666011352 beta-alpha-beta structure motif; other site 381666011353 NAD binding pocket [chemical binding]; other site 381666011354 Heme binding pocket [chemical binding]; other site 381666011355 Predicted transcriptional regulator [Transcription]; Region: COG1959 381666011356 Helix-turn-helix domains; Region: HTH; cl00088 381666011357 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 381666011358 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 381666011359 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 381666011360 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 381666011361 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 381666011362 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 381666011363 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 381666011364 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 381666011365 GspL periplasmic domain; Region: GspL_C; cl14909 381666011366 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 381666011367 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 381666011368 type II secretion system protein D; Region: type_II_gspD; TIGR02517 381666011369 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 381666011370 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 381666011371 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 381666011372 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 381666011373 type II secretion system protein E; Region: type_II_gspE; TIGR02533 381666011374 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 381666011375 Walker A motif; other site 381666011376 ATP binding site [chemical binding]; other site 381666011377 Walker B motif; other site 381666011378 type II secretion system protein F; Region: GspF; TIGR02120 381666011379 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 381666011380 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 381666011381 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 381666011382 putative metal binding site [ion binding]; other site 381666011383 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 381666011384 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 381666011385 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 381666011386 dimer interface [polypeptide binding]; other site 381666011387 PYR/PP interface [polypeptide binding]; other site 381666011388 TPP binding site [chemical binding]; other site 381666011389 substrate binding site [chemical binding]; other site 381666011390 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 381666011391 TPP-binding site; other site 381666011392 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 381666011393 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 381666011394 putative acetyltransferase; Provisional; Region: PRK03624 381666011395 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666011396 Coenzyme A binding pocket [chemical binding]; other site 381666011397 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 381666011398 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 381666011399 dimer interface [polypeptide binding]; other site 381666011400 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666011401 metal binding site [ion binding]; metal-binding site 381666011402 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666011403 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666011404 putative substrate translocation pore; other site 381666011405 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 381666011406 putative active site [active] 381666011407 metal binding site [ion binding]; metal-binding site 381666011408 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 381666011409 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 381666011410 Cation efflux family; Region: Cation_efflux; cl00316 381666011411 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666011412 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 381666011413 active site 381666011414 metal binding site [ion binding]; metal-binding site 381666011415 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 381666011416 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 381666011417 catalytic residues [active] 381666011418 Cytochrome c [Energy production and conversion]; Region: COG3258 381666011419 DsrE/DsrF-like family; Region: DrsE; cl00672 381666011420 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 381666011421 Predicted secreted protein [Function unknown]; Region: COG5501 381666011422 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 381666011423 Cytochrome c; Region: Cytochrom_C; cl11414 381666011424 Cytochrome c; Region: Cytochrom_C; cl11414 381666011425 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 381666011426 Moco binding site; other site 381666011427 metal coordination site [ion binding]; other site 381666011428 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 381666011429 dimerization interface [polypeptide binding]; other site 381666011430 putative DNA binding site [nucleotide binding]; other site 381666011431 putative Zn2+ binding site [ion binding]; other site 381666011432 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 381666011433 EamA-like transporter family; Region: EamA; cl01037 381666011434 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 381666011435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666011436 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 381666011437 Cytochrome c; Region: Cytochrom_C; cl11414 381666011438 BON domain; Region: BON; cl02771 381666011439 BON domain; Region: BON; cl02771 381666011440 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 381666011441 dimer interface [polypeptide binding]; other site 381666011442 active site 381666011443 Restriction endonuclease; Region: Mrr_cat; cl00516 381666011444 Predicted methyltransferases [General function prediction only]; Region: COG0313 381666011445 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 381666011446 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666011447 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 381666011448 ArsC family; Region: ArsC; pfam03960 381666011449 catalytic residues [active] 381666011450 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 381666011451 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 381666011452 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 381666011453 putative metal binding site [ion binding]; other site 381666011454 allantoate amidohydrolase; Reviewed; Region: PRK12890 381666011455 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 381666011456 active site 381666011457 metal binding site [ion binding]; metal-binding site 381666011458 dimer interface [polypeptide binding]; other site 381666011459 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 381666011460 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 381666011461 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666011462 DNA-binding site [nucleotide binding]; DNA binding site 381666011463 FCD domain; Region: FCD; cl11656 381666011464 short chain dehydrogenase; Provisional; Region: PRK07576 381666011465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666011466 NAD(P) binding site [chemical binding]; other site 381666011467 active site 381666011468 enoyl-CoA hydratase; Provisional; Region: PRK08140 381666011469 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 381666011470 substrate binding site [chemical binding]; other site 381666011471 oxyanion hole (OAH) forming residues; other site 381666011472 trimer interface [polypeptide binding]; other site 381666011473 enoyl-CoA hydratase; Provisional; Region: PRK07509 381666011474 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 381666011475 substrate binding site [chemical binding]; other site 381666011476 oxyanion hole (OAH) forming residues; other site 381666011477 trimer interface [polypeptide binding]; other site 381666011478 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 381666011479 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 381666011480 Helix-turn-helix domains; Region: HTH; cl00088 381666011481 transcriptional activator TtdR; Provisional; Region: PRK09801 381666011482 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 381666011483 putative effector binding pocket; other site 381666011484 dimerization interface [polypeptide binding]; other site 381666011485 glyoxylate carboligase; Provisional; Region: PRK11269 381666011486 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666011487 PYR/PP interface [polypeptide binding]; other site 381666011488 dimer interface [polypeptide binding]; other site 381666011489 TPP binding site [chemical binding]; other site 381666011490 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 381666011491 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 381666011492 TPP-binding site [chemical binding]; other site 381666011493 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 381666011494 tartronate semialdehyde reductase; Provisional; Region: PRK15059 381666011495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666011496 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 381666011497 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 381666011498 MOFRL family; Region: MOFRL; pfam05161 381666011499 pyruvate kinase; Provisional; Region: PRK06247 381666011500 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; cl09155 381666011501 domain interfaces; other site 381666011502 active site 381666011503 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 381666011504 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 381666011505 Protein export membrane protein; Region: SecD_SecF; cl14618 381666011506 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 381666011507 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 381666011508 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 381666011509 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 381666011510 DNA binding residues [nucleotide binding] 381666011511 dimer interface [polypeptide binding]; other site 381666011512 putative metal binding site [ion binding]; other site 381666011513 Peptidase family M48; Region: Peptidase_M48; cl12018 381666011514 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666011515 RF-1 domain; Region: RF-1; cl02875 381666011516 MltA-interacting protein MipA; Region: MipA; cl01504 381666011517 Cytochrome c; Region: Cytochrom_C; cl11414 381666011518 Cytochrome c; Region: Cytochrom_C; cl11414 381666011519 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 381666011520 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 381666011521 FeS/SAM binding site; other site 381666011522 HemN C-terminal domain; Region: HemN_C; pfam06969 381666011523 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 381666011524 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 381666011525 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666011526 Family description; Region: UvrD_C_2; cl15862 381666011527 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 381666011528 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 381666011529 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 381666011530 lipoyl attachment site [posttranslational modification]; other site 381666011531 glycine dehydrogenase; Provisional; Region: PRK05367 381666011532 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 381666011533 tetramer interface [polypeptide binding]; other site 381666011534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666011535 catalytic residue [active] 381666011536 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 381666011537 tetramer interface [polypeptide binding]; other site 381666011538 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666011539 catalytic residue [active] 381666011540 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 381666011541 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 381666011542 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 381666011543 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 381666011544 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666011545 OsmC-like protein; Region: OsmC; cl00767 381666011546 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 381666011547 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 381666011548 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 381666011549 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 381666011550 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 381666011551 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 381666011552 binding surface 381666011553 TPR motif; other site 381666011554 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 381666011555 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 381666011556 dimerization interface [polypeptide binding]; other site 381666011557 ligand binding site [chemical binding]; other site 381666011558 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 381666011559 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 381666011560 Proline dehydrogenase; Region: Pro_dh; cl03282 381666011561 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 381666011562 Glutamate binding site [chemical binding]; other site 381666011563 NAD binding site [chemical binding]; other site 381666011564 catalytic residues [active] 381666011565 primosome assembly protein PriA; Validated; Region: PRK05580 381666011566 primosome assembly protein PriA; Validated; Region: PRK05580 381666011567 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 381666011568 ATP binding site [chemical binding]; other site 381666011569 putative Mg++ binding site [ion binding]; other site 381666011570 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666011571 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 381666011572 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 381666011573 substrate binding site [chemical binding]; other site 381666011574 active site 381666011575 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 381666011576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666011577 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 381666011578 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 381666011579 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 381666011580 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 381666011581 alpha subunit interaction interface [polypeptide binding]; other site 381666011582 Walker A motif; other site 381666011583 ATP binding site [chemical binding]; other site 381666011584 Walker B motif; other site 381666011585 inhibitor binding site; inhibition site 381666011586 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 381666011587 ATP synthase; Region: ATP-synt; cl00365 381666011588 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 381666011589 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 381666011590 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 381666011591 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 381666011592 beta subunit interaction interface [polypeptide binding]; other site 381666011593 Walker A motif; other site 381666011594 ATP binding site [chemical binding]; other site 381666011595 Walker B motif; other site 381666011596 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 381666011597 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 381666011598 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 381666011599 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 381666011600 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 381666011601 ATP synthase subunit C; Region: ATP-synt_C; cl00466 381666011602 ATP synthase A chain; Region: ATP-synt_A; cl00413 381666011603 ATP synthase I chain; Region: ATP_synt_I; cl09170 381666011604 ParB-like partition proteins; Region: parB_part; TIGR00180 381666011605 ParB-like nuclease domain; Region: ParBc; cl02129 381666011606 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 381666011607 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 381666011608 P-loop; other site 381666011609 Magnesium ion binding site [ion binding]; other site 381666011610 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 381666011611 Magnesium ion binding site [ion binding]; other site 381666011612 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; cl16911 381666011613 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 381666011614 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666011615 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 381666011616 N-formylglutamate amidohydrolase; Region: FGase; cl01522 381666011617 NMT1-like family; Region: NMT1_2; cl15260 381666011618 Helix-turn-helix domains; Region: HTH; cl00088 381666011619 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666011620 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 381666011621 dimerization interface [polypeptide binding]; other site 381666011622 substrate binding pocket [chemical binding]; other site 381666011623 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666011624 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 381666011625 Walker A/P-loop; other site 381666011626 ATP binding site [chemical binding]; other site 381666011627 Q-loop/lid; other site 381666011628 ABC transporter signature motif; other site 381666011629 Walker B; other site 381666011630 D-loop; other site 381666011631 H-loop/switch region; other site 381666011632 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 381666011633 TM-ABC transporter signature motif; other site 381666011634 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666011635 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 381666011636 Walker A/P-loop; other site 381666011637 ATP binding site [chemical binding]; other site 381666011638 Q-loop/lid; other site 381666011639 ABC transporter signature motif; other site 381666011640 Walker B; other site 381666011641 D-loop; other site 381666011642 H-loop/switch region; other site 381666011643 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 381666011644 TM-ABC transporter signature motif; other site 381666011645 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 381666011646 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 381666011647 putative ligand binding site [chemical binding]; other site 381666011648 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 381666011649 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 381666011650 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 381666011651 TM-ABC transporter signature motif; other site 381666011652 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 381666011653 TM-ABC transporter signature motif; other site 381666011654 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666011655 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 381666011656 putative ligand binding site [chemical binding]; other site 381666011657 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666011658 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 381666011659 Walker A/P-loop; other site 381666011660 ATP binding site [chemical binding]; other site 381666011661 Q-loop/lid; other site 381666011662 ABC transporter signature motif; other site 381666011663 Walker B; other site 381666011664 D-loop; other site 381666011665 H-loop/switch region; other site 381666011666 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666011667 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 381666011668 Walker A/P-loop; other site 381666011669 ATP binding site [chemical binding]; other site 381666011670 Q-loop/lid; other site 381666011671 ABC transporter signature motif; other site 381666011672 Walker B; other site 381666011673 D-loop; other site 381666011674 H-loop/switch region; other site 381666011675 choline dehydrogenase; Validated; Region: PRK02106 381666011676 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 381666011677 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 381666011678 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666011679 tetrameric interface [polypeptide binding]; other site 381666011680 NAD binding site [chemical binding]; other site 381666011681 catalytic residues [active] 381666011682 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666011683 Helix-turn-helix domains; Region: HTH; cl00088 381666011684 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 381666011685 dimerization interface [polypeptide binding]; other site 381666011686 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 381666011687 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; cl12031 381666011688 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 381666011689 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 381666011690 DNA binding residues [nucleotide binding] 381666011691 dimer interface [polypeptide binding]; other site 381666011692 copper binding site [ion binding]; other site 381666011693 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 381666011694 metal-binding site [ion binding] 381666011695 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 381666011696 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 381666011697 metal-binding site [ion binding] 381666011698 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 381666011699 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 381666011700 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 381666011701 metal-binding site [ion binding] 381666011702 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; cl01155 381666011703 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 381666011704 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666011705 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666011706 Helix-turn-helix domains; Region: HTH; cl00088 381666011707 ornithine cyclodeaminase; Validated; Region: PRK07340 381666011708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666011709 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 381666011710 Transglycosylase; Region: Transgly; cl07896 381666011711 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666011712 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 381666011713 YhhN-like protein; Region: YhhN; cl01505 381666011714 Bacterial Ig-like domain; Region: Big_5; cl01012 381666011715 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 381666011716 MG2 domain; Region: A2M_N; pfam01835 381666011717 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 381666011718 Alpha-2-macroglobulin family; Region: A2M; pfam00207 381666011719 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 381666011720 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666011721 Helix-turn-helix domains; Region: HTH; cl00088 381666011722 AsnC family; Region: AsnC_trans_reg; pfam01037 381666011723 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 381666011724 cofactor binding site; other site 381666011725 metal binding site [ion binding]; metal-binding site 381666011726 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 381666011727 aromatic arch; other site 381666011728 DCoH dimer interaction site [polypeptide binding]; other site 381666011729 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 381666011730 DCoH tetramer interaction site [polypeptide binding]; other site 381666011731 substrate binding site [chemical binding]; other site 381666011732 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 381666011733 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666011734 active site 381666011735 phosphorylation site [posttranslational modification] 381666011736 intermolecular recognition site; other site 381666011737 dimerization interface [polypeptide binding]; other site 381666011738 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 381666011739 DNA binding site [nucleotide binding] 381666011740 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 381666011741 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 381666011742 dimer interface [polypeptide binding]; other site 381666011743 phosphorylation site [posttranslational modification] 381666011744 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 381666011745 ATP binding site [chemical binding]; other site 381666011746 Mg2+ binding site [ion binding]; other site 381666011747 G-X-G motif; other site 381666011748 SET domain; Region: SET; cl02566 381666011749 Cysteine-rich motif following a subset of SET domains; Region: PostSET; smart00508 381666011750 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 381666011751 IHF dimer interface [polypeptide binding]; other site 381666011752 IHF - DNA interface [nucleotide binding]; other site 381666011753 Uncharacterized protein conserved in bacteria (DUF2272); Region: DUF2272; cl01776 381666011754 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 381666011755 active site 381666011756 DNA polymerase IV; Validated; Region: PRK02406 381666011757 DNA binding site [nucleotide binding] 381666011758 Predicted permeases [General function prediction only]; Region: RarD; COG2962 381666011759 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 381666011760 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; cl01155 381666011761 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 381666011762 LysE type translocator; Region: LysE; cl00565 381666011763 Response regulator receiver domain; Region: Response_reg; pfam00072 381666011764 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666011765 active site 381666011766 phosphorylation site [posttranslational modification] 381666011767 intermolecular recognition site; other site 381666011768 dimerization interface [polypeptide binding]; other site 381666011769 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 381666011770 Helix-turn-helix domains; Region: HTH; cl00088 381666011771 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 381666011772 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 381666011773 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 381666011774 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 381666011775 putative active site [active] 381666011776 heme pocket [chemical binding]; other site 381666011777 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 381666011778 dimer interface [polypeptide binding]; other site 381666011779 phosphorylation site [posttranslational modification] 381666011780 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 381666011781 ATP binding site [chemical binding]; other site 381666011782 Mg2+ binding site [ion binding]; other site 381666011783 G-X-G motif; other site 381666011784 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 381666011785 16S rRNA methyltransferase B; Provisional; Region: PRK10901 381666011786 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 381666011787 S-adenosylmethionine binding site [chemical binding]; other site 381666011788 Peptidase family M48; Region: Peptidase_M48; cl12018 381666011789 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 381666011790 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 381666011791 putative active site [active] 381666011792 substrate binding site [chemical binding]; other site 381666011793 putative cosubstrate binding site; other site 381666011794 catalytic site [active] 381666011795 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 381666011796 substrate binding site [chemical binding]; other site 381666011797 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 381666011798 active site 381666011799 catalytic residues [active] 381666011800 metal binding site [ion binding]; metal-binding site 381666011801 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 381666011802 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 381666011803 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 381666011804 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 381666011805 catalytic residues [active] 381666011806 DNA topoisomerase III; Validated; Region: PRK08173 381666011807 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 381666011808 active site 381666011809 putative interdomain interaction site [polypeptide binding]; other site 381666011810 putative metal-binding site [ion binding]; other site 381666011811 putative nucleotide binding site [chemical binding]; other site 381666011812 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 381666011813 domain I; other site 381666011814 DNA binding groove [nucleotide binding] 381666011815 phosphate binding site [ion binding]; other site 381666011816 domain II; other site 381666011817 domain III; other site 381666011818 nucleotide binding site [chemical binding]; other site 381666011819 catalytic site [active] 381666011820 domain IV; other site 381666011821 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 381666011822 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 381666011823 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666011824 Helix-turn-helix domains; Region: HTH; cl00088 381666011825 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 381666011826 putative effector binding pocket; other site 381666011827 dimerization interface [polypeptide binding]; other site 381666011828 Protein of unknown function (DUF466); Region: DUF466; cl01082 381666011829 carbon starvation protein A; Provisional; Region: PRK15015 381666011830 Carbon starvation protein CstA; Region: CstA; pfam02554 381666011831 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 381666011832 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 381666011833 Cache domain; Region: Cache_2; cl07034 381666011834 Histidine kinase; Region: HisKA_3; pfam07730 381666011835 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 381666011836 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666011837 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666011838 active site 381666011839 phosphorylation site [posttranslational modification] 381666011840 intermolecular recognition site; other site 381666011841 dimerization interface [polypeptide binding]; other site 381666011842 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 381666011843 DNA binding residues [nucleotide binding] 381666011844 dimerization interface [polypeptide binding]; other site 381666011845 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 381666011846 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 381666011847 active site 381666011848 substrate-binding site [chemical binding]; other site 381666011849 metal-binding site [ion binding] 381666011850 GTP binding site [chemical binding]; other site 381666011851 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 381666011852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666011853 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 381666011854 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666011855 putative substrate translocation pore; other site 381666011856 MOSC domain; Region: MOSC; pfam03473 381666011857 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666011858 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666011859 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666011860 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 381666011861 Protein of unknown function, DUF399; Region: DUF399; cl01139 381666011862 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666011863 NMT1-like family; Region: NMT1_2; cl15260 381666011864 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 381666011865 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 381666011866 Putative ammonia monooxygenase; Region: AmoA; pfam05145 381666011867 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 381666011868 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 381666011869 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 381666011870 CoenzymeA binding site [chemical binding]; other site 381666011871 subunit interaction site [polypeptide binding]; other site 381666011872 PHB binding site; other site 381666011873 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 381666011874 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 381666011875 glutathione reductase; Validated; Region: PRK06116 381666011876 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666011877 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 381666011878 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 381666011879 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 381666011880 dimer interface [polypeptide binding]; other site 381666011881 phosphorylation site [posttranslational modification] 381666011882 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 381666011883 ATP binding site [chemical binding]; other site 381666011884 Mg2+ binding site [ion binding]; other site 381666011885 G-X-G motif; other site 381666011886 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 381666011887 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666011888 active site 381666011889 phosphorylation site [posttranslational modification] 381666011890 intermolecular recognition site; other site 381666011891 dimerization interface [polypeptide binding]; other site 381666011892 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 381666011893 DNA binding site [nucleotide binding] 381666011894 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 381666011895 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 381666011896 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 381666011897 Helix-turn-helix domains; Region: HTH; cl00088 381666011898 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 381666011899 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 381666011900 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666011901 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666011902 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 381666011903 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 381666011904 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; cl01155 381666011905 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 381666011906 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 381666011907 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 381666011908 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666011909 Helix-turn-helix domains; Region: HTH; cl00088 381666011910 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 381666011911 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 381666011912 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666011913 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666011914 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666011915 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 381666011916 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666011917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666011918 short chain dehydrogenase; Provisional; Region: PRK06924 381666011919 NAD(P) binding site [chemical binding]; other site 381666011920 active site 381666011921 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; cl12031 381666011922 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666011923 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; cl12031 381666011924 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 381666011925 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 381666011926 membrane protein insertase; Provisional; Region: PRK01318 381666011927 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 381666011928 Haemolytic domain; Region: Haemolytic; cl00506 381666011929 Ribonuclease P; Region: Ribonuclease_P; cl00457 381666011930 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 381666011931 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 381666011932 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 protein; Region: CSP_CDS; cd04458 381666011933 DNA-binding site [nucleotide binding]; DNA binding site 381666011934 RNA-binding motif; other site 381666011935 ParA-like protein; Provisional; Region: PHA02518 381666011936 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 381666011937 P-loop; other site 381666011938 Magnesium ion binding site [ion binding]; other site 381666011939 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 381666011940 ParB-like nuclease domain; Region: ParBc; cl02129 381666011941 Phage integrase protein; Region: DUF3701; pfam12482 381666011942 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666011943 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 381666011944 DNA binding residues [nucleotide binding] 381666011945 dimerization interface [polypeptide binding]; other site 381666011946 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 381666011947 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666011948 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 381666011949 ligand binding site [chemical binding]; other site 381666011950 flexible hinge region; other site 381666011951 Helix-turn-helix domains; Region: HTH; cl00088 381666011952 non-specific DNA interactions [nucleotide binding]; other site 381666011953 DNA binding site [nucleotide binding] 381666011954 sequence specific DNA binding site [nucleotide binding]; other site 381666011955 putative cAMP binding site [chemical binding]; other site 381666011956 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 381666011957 Chain length determinant protein; Region: Wzz; cl15801 381666011958 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666011959 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 381666011960 Nucleotide binding site [chemical binding]; other site 381666011961 DTAP/Switch II; other site 381666011962 Switch I; other site 381666011963 Phosphopantetheine attachment site; Region: PP-binding; cl09936 381666011964 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666011965 active site 381666011966 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 381666011967 dimer interface [polypeptide binding]; other site 381666011968 motif 1; other site 381666011969 active site 381666011970 motif 2; other site 381666011971 motif 3; other site 381666011972 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 381666011973 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 381666011974 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 381666011975 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 381666011976 OpgC protein; Region: OpgC_C; cl00792 381666011977 Bacterial sugar transferase; Region: Bac_transf; cl00939 381666011978 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 381666011979 active site 381666011980 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 381666011981 putative trimer interface [polypeptide binding]; other site 381666011982 putative CoA binding site [chemical binding]; other site 381666011983 Chain length determinant protein; Region: Wzz; cl15801 381666011984 tyrosine kinase; Provisional; Region: PRK11519 381666011985 Chain length determinant protein; Region: Wzz; cl15801 381666011986 Low molecular weight phosphatase family; Region: LMWPc; cd00115 381666011987 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 381666011988 active site 381666011989 polysaccharide export protein Wza; Provisional; Region: PRK15078 381666011990 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 381666011991 SLBB domain; Region: SLBB; pfam10531 381666011992 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666011993 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 381666011994 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 381666011995 putative active site [active] 381666011996 putative catalytic site [active] 381666011997 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 381666011998 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 381666011999 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 381666012000 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 381666012001 inhibitor-cofactor binding pocket; inhibition site 381666012002 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666012003 catalytic residue [active] 381666012004 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 381666012005 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 381666012006 putative trimer interface [polypeptide binding]; other site 381666012007 putative active site [active] 381666012008 putative substrate binding site [chemical binding]; other site 381666012009 putative CoA binding site [chemical binding]; other site 381666012010 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 381666012011 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666012012 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 381666012013 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 381666012014 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 381666012015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666012016 tyrosine kinase; Provisional; Region: PRK11519 381666012017 Chain length determinant protein; Region: Wzz; cl15801 381666012018 Chain length determinant protein; Region: Wzz; cl15801 381666012019 Chain length determinant protein; Region: Wzz; cl15801 381666012020 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 381666012021 DTAP/Switch II; other site 381666012022 Switch I; other site 381666012023 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666012024 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666012025 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 381666012026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666012027 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 381666012028 NAD(P) binding site [chemical binding]; other site 381666012029 homodimer interface [polypeptide binding]; other site 381666012030 substrate binding site [chemical binding]; other site 381666012031 active site 381666012032 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 381666012033 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 381666012034 inhibitor-cofactor binding pocket; inhibition site 381666012035 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666012036 catalytic residue [active] 381666012037 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 381666012038 active site 381666012039 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 381666012040 active site 381666012041 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 381666012042 active site 381666012043 phosphorylation site [posttranslational modification] 381666012044 intermolecular recognition site; other site 381666012045 dimerization interface [polypeptide binding]; other site 381666012046 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 381666012047 DNA binding residues [nucleotide binding] 381666012048 dimerization interface [polypeptide binding]; other site 381666012049 cyanate hydratase; Validated; Region: PRK02866 381666012050 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 381666012051 oligomer interface [polypeptide binding]; other site 381666012052 active site 381666012053 putative cyanate transporter; Provisional; Region: cynX; PRK09705 381666012054 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 381666012055 nucleoside/Zn binding site; other site 381666012056 dimer interface [polypeptide binding]; other site 381666012057 catalytic motif [active] 381666012058 Helix-turn-helix domains; Region: HTH; cl00088 381666012059 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 381666012060 dimerization interface [polypeptide binding]; other site 381666012061 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666012062 active site 381666012063 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 381666012064 substrate binding site [chemical binding]; other site 381666012065 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 381666012066 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 381666012067 substrate binding site [chemical binding]; other site 381666012068 ligand binding site [chemical binding]; other site 381666012069 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012070 NMT1-like family; Region: NMT1_2; cl15260 381666012071 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666012072 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666012073 DNA-binding site [nucleotide binding]; DNA binding site 381666012074 UTRA domain; Region: UTRA; cl01230 381666012075 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 bacteriocins; Region: Peptidase_C39G; cd02423 381666012076 putative active site [active] 381666012077 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666012078 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 381666012079 putative ligand binding site [chemical binding]; other site 381666012080 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 381666012081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666012082 NAD(P) binding site [chemical binding]; other site 381666012083 active site 381666012084 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 381666012085 Helix-turn-helix domains; Region: HTH; cl00088 381666012086 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 381666012087 putative dimerization interface [polypeptide binding]; other site 381666012088 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 381666012089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012090 NMT1-like family; Region: NMT1_2; cl15260 381666012091 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666012092 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 381666012093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666012094 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666012095 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666012096 Coenzyme A binding pocket [chemical binding]; other site 381666012097 AMP nucleosidase; Provisional; Region: PRK08292 381666012098 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 381666012099 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 381666012100 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 381666012101 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 381666012102 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 381666012103 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 381666012104 Walker A/P-loop; other site 381666012105 ATP binding site [chemical binding]; other site 381666012106 Q-loop/lid; other site 381666012107 ABC transporter signature motif; other site 381666012108 Walker B; other site 381666012109 D-loop; other site 381666012110 H-loop/switch region; other site 381666012111 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 381666012112 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 381666012113 Walker A/P-loop; other site 381666012114 ATP binding site [chemical binding]; other site 381666012115 Q-loop/lid; other site 381666012116 ABC transporter signature motif; other site 381666012117 Walker B; other site 381666012118 D-loop; other site 381666012119 H-loop/switch region; other site 381666012120 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 381666012121 TM-ABC transporter signature motif; other site 381666012122 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 381666012123 TM-ABC transporter signature motif; other site 381666012124 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666012125 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 381666012126 putative ligand binding site [chemical binding]; other site 381666012127 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 381666012128 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 381666012129 dimer interface [polypeptide binding]; other site 381666012130 phosphorylation site [posttranslational modification] 381666012131 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 381666012132 ATP binding site [chemical binding]; other site 381666012133 Mg2+ binding site [ion binding]; other site 381666012134 G-X-G motif; other site 381666012135 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666012136 active site 381666012137 phosphorylation site [posttranslational modification] 381666012138 intermolecular recognition site; other site 381666012139 dimerization interface [polypeptide binding]; other site 381666012140 Response regulator receiver domain; Region: Response_reg; pfam00072 381666012141 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666012142 active site 381666012143 phosphorylation site [posttranslational modification] 381666012144 intermolecular recognition site; other site 381666012145 dimerization interface [polypeptide binding]; other site 381666012146 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 381666012147 DNA binding residues [nucleotide binding] 381666012148 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; cl01155 381666012149 2-isopropylmalate synthase; Validated; Region: PRK03739 381666012150 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 381666012151 active site 381666012152 catalytic residues [active] 381666012153 metal binding site [ion binding]; metal-binding site 381666012154 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 381666012155 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 381666012156 ferrous iron transporter FeoB; Region: feoB; TIGR00437 381666012157 G1 box; other site 381666012158 GTP/Mg2+ binding site [chemical binding]; other site 381666012159 Switch I region; other site 381666012160 G2 box; other site 381666012161 G3 box; other site 381666012162 Switch II region; other site 381666012163 G4 box; other site 381666012164 G5 box; other site 381666012165 Nucleoside recognition; Region: Gate; cl00486 381666012166 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 381666012167 Nucleoside recognition; Region: Gate; cl00486 381666012168 FeoA domain; Region: FeoA; cl00838 381666012169 Helix-turn-helix domains; Region: HTH; cl00088 381666012170 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 381666012171 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 381666012172 putative dimerization interface [polypeptide binding]; other site 381666012173 putative substrate binding pocket [chemical binding]; other site 381666012174 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666012175 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666012176 active site 381666012177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012178 NMT1-like family; Region: NMT1_2; cl15260 381666012179 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666012180 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666012181 L-lactate permease; Region: Lactate_perm; cl00701 381666012182 glycolate transporter; Provisional; Region: PRK09695 381666012183 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 381666012184 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 381666012185 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 381666012186 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 381666012187 Cysteine-rich domain; Region: CCG; pfam02754 381666012188 Cysteine-rich domain; Region: CCG; pfam02754 381666012189 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666012190 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666012191 DNA-binding site [nucleotide binding]; DNA binding site 381666012192 FCD domain; Region: FCD; cl11656 381666012193 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 381666012194 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 381666012195 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 381666012196 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 381666012197 putative deacylase active site [active] 381666012198 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666012199 Helix-turn-helix domains; Region: HTH; cl00088 381666012200 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 381666012201 putative effector binding pocket; other site 381666012202 dimerization interface [polypeptide binding]; other site 381666012203 short chain dehydrogenase; Provisional; Region: PRK12937 381666012204 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 381666012205 NADP binding site [chemical binding]; other site 381666012206 homodimer interface [polypeptide binding]; other site 381666012207 active site 381666012208 substrate binding site [chemical binding]; other site 381666012209 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 381666012210 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 381666012211 FAD binding pocket [chemical binding]; other site 381666012212 FAD binding motif [chemical binding]; other site 381666012213 phosphate binding motif [ion binding]; other site 381666012214 beta-alpha-beta structure motif; other site 381666012215 NAD binding pocket [chemical binding]; other site 381666012216 fumarate hydratase; Reviewed; Region: fumC; PRK00485 381666012217 Class II fumarases; Region: Fumarase_classII; cd01362 381666012218 active site 381666012219 tetramer interface [polypeptide binding]; other site 381666012220 Helix-turn-helix domains; Region: HTH; cl00088 381666012221 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 381666012222 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 381666012223 dimerization interface [polypeptide binding]; other site 381666012224 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 381666012225 dimerization interface [polypeptide binding]; other site 381666012226 Cache domain; Region: Cache_1; pfam02743 381666012227 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 381666012228 PAS fold; Region: PAS_4; pfam08448 381666012229 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 381666012230 putative active site [active] 381666012231 heme pocket [chemical binding]; other site 381666012232 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666012233 metal binding site [ion binding]; metal-binding site 381666012234 active site 381666012235 I-site; other site 381666012236 CHASE domain; Region: CHASE; cl01369 381666012237 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 381666012238 PAS domain; Region: PAS_9; pfam13426 381666012239 PAS domain S-box; Region: sensory_box; TIGR00229 381666012240 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666012241 metal binding site [ion binding]; metal-binding site 381666012242 active site 381666012243 I-site; other site 381666012244 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 381666012245 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 381666012246 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666012247 Walker A/P-loop; other site 381666012248 ATP binding site [chemical binding]; other site 381666012249 Q-loop/lid; other site 381666012250 ABC transporter signature motif; other site 381666012251 Walker B; other site 381666012252 D-loop; other site 381666012253 H-loop/switch region; other site 381666012254 TOBE domain; Region: TOBE_2; cl01440 381666012255 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 381666012256 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 381666012257 dimer interface [polypeptide binding]; other site 381666012258 conserved gate region; other site 381666012259 ABC-ATPase subunit interface; other site 381666012260 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 381666012261 dimer interface [polypeptide binding]; other site 381666012262 conserved gate region; other site 381666012263 putative PBP binding loops; other site 381666012264 ABC-ATPase subunit interface; other site 381666012265 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 381666012266 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 381666012267 Helix-turn-helix domains; Region: HTH; cl00088 381666012268 EamA-like transporter family; Region: EamA; cl01037 381666012269 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 381666012270 EamA-like transporter family; Region: EamA; cl01037 381666012271 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 381666012272 non-specific DNA binding site [nucleotide binding]; other site 381666012273 salt bridge; other site 381666012274 sequence-specific DNA binding site [nucleotide binding]; other site 381666012275 ferric uptake regulator; Provisional; Region: fur; PRK09462 381666012276 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 381666012277 metal binding site 2 [ion binding]; metal-binding site 381666012278 putative DNA binding helix; other site 381666012279 metal binding site 1 [ion binding]; metal-binding site 381666012280 dimer interface [polypeptide binding]; other site 381666012281 structural Zn2+ binding site [ion binding]; other site 381666012282 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 381666012283 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 381666012284 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 381666012285 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 381666012286 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 381666012287 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 381666012288 trimer interface [polypeptide binding]; other site 381666012289 eyelet of channel; other site 381666012290 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666012291 Helix-turn-helix domains; Region: HTH; cl00088 381666012292 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 381666012293 dimerization interface [polypeptide binding]; other site 381666012294 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 381666012295 elongation factor G; Reviewed; Region: PRK00007 381666012296 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 381666012297 G1 box; other site 381666012298 putative GEF interaction site [polypeptide binding]; other site 381666012299 GTP/Mg2+ binding site [chemical binding]; other site 381666012300 Switch I region; other site 381666012301 G2 box; other site 381666012302 G3 box; other site 381666012303 Switch II region; other site 381666012304 G4 box; other site 381666012305 G5 box; other site 381666012306 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 381666012307 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 381666012308 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 381666012309 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666012310 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666012311 active site 381666012312 phosphorylation site [posttranslational modification] 381666012313 intermolecular recognition site; other site 381666012314 dimerization interface [polypeptide binding]; other site 381666012315 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 381666012316 DNA binding residues [nucleotide binding] 381666012317 dimerization interface [polypeptide binding]; other site 381666012318 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666012319 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666012320 DNA-binding site [nucleotide binding]; DNA binding site 381666012321 FCD domain; Region: FCD; cl11656 381666012322 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 381666012323 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 381666012324 active site 381666012325 tetramer interface [polypeptide binding]; other site 381666012326 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012327 NMT1-like family; Region: NMT1_2; cl15260 381666012328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012329 NMT1-like family; Region: NMT1_2; cl15260 381666012330 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666012331 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 381666012332 dimer interface [polypeptide binding]; other site 381666012333 NADP binding site [chemical binding]; other site 381666012334 catalytic residues [active] 381666012335 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 381666012336 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 381666012337 putative active site [active] 381666012338 catalytic residue [active] 381666012339 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 381666012340 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 381666012341 active site residue [active] 381666012342 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 381666012343 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 381666012344 trimer interface [polypeptide binding]; other site 381666012345 eyelet of channel; other site 381666012346 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 381666012347 active site pocket [active] 381666012348 oxyanion hole [active] 381666012349 catalytic triad [active] 381666012350 active site nucleophile [active] 381666012351 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 381666012352 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 381666012353 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666012354 catalytic residue [active] 381666012355 OPT oligopeptide transporter protein; Region: OPT; cl14607 381666012356 OPT oligopeptide transporter protein; Region: OPT; cl14607 381666012357 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666012358 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666012359 Helix-turn-helix domains; Region: HTH; cl00088 381666012360 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666012361 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 381666012362 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 381666012363 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 381666012364 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 381666012365 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 381666012366 Walker A motif; other site 381666012367 ATP binding site [chemical binding]; other site 381666012368 Walker B motif; other site 381666012369 arginine finger; other site 381666012370 Helix-turn-helix domains; Region: HTH; cl00088 381666012371 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 381666012372 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 381666012373 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 381666012374 tetramer interface [polypeptide binding]; other site 381666012375 TPP-binding site [chemical binding]; other site 381666012376 heterodimer interface [polypeptide binding]; other site 381666012377 phosphorylation loop region [posttranslational modification] 381666012378 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 381666012379 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 381666012380 alpha subunit interface [polypeptide binding]; other site 381666012381 TPP binding site [chemical binding]; other site 381666012382 heterodimer interface [polypeptide binding]; other site 381666012383 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 381666012384 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 381666012385 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 381666012386 E3 interaction surface; other site 381666012387 lipoyl attachment site [posttranslational modification]; other site 381666012388 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; cl12031 381666012389 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666012390 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 381666012391 OsmC-like protein; Region: OsmC; cl00767 381666012392 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 381666012393 GIY-YIG motif/motif A; other site 381666012394 putative active site [active] 381666012395 putative metal binding site [ion binding]; other site 381666012396 OsmC-like protein; Region: OsmC; cl00767 381666012397 Transcriptional regulators [Transcription]; Region: MarR; COG1846 381666012398 Helix-turn-helix domains; Region: HTH; cl00088 381666012399 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 381666012400 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 381666012401 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 381666012402 protein binding site [polypeptide binding]; other site 381666012403 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 381666012404 protein binding site [polypeptide binding]; other site 381666012405 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666012406 putative substrate translocation pore; other site 381666012407 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666012408 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666012409 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 381666012410 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 381666012411 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 381666012412 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 381666012413 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 381666012414 Walker A motif; other site 381666012415 ATP binding site [chemical binding]; other site 381666012416 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 381666012417 Walker B motif; other site 381666012418 arginine finger; other site 381666012419 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 381666012420 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 381666012421 Helix-turn-helix domains; Region: HTH; cl00088 381666012422 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666012423 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 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 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666012427 Helix-turn-helix domains; Region: HTH; cl00088 381666012428 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 381666012429 putative effector binding pocket; other site 381666012430 dimerization interface [polypeptide binding]; other site 381666012431 YGGT family; Region: YGGT; cl00508 381666012432 YGGT family; Region: YGGT; cl00508 381666012433 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666012434 Helix-turn-helix domains; Region: HTH; cl00088 381666012435 acyl-CoA synthetase; Validated; Region: PRK08316 381666012436 AMP-binding enzyme; Region: AMP-binding; cl15778 381666012437 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666012438 Dienelactone hydrolase family; Region: DLH; pfam01738 381666012439 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 381666012440 PLD-like domain; Region: PLDc_2; pfam13091 381666012441 putative active site [active] 381666012442 catalytic site [active] 381666012443 Dodecin; Region: Dodecin; cl01328 381666012444 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 381666012445 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 381666012446 Surface antigen; Region: Bac_surface_Ag; cl03097 381666012447 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 381666012448 Flp/Fap pilin component; Region: Flp_Fap; cl01585 381666012449 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 381666012450 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 381666012451 TadE-like protein; Region: TadE; cl10688 381666012452 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 381666012453 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 381666012454 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 381666012455 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 381666012456 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666012457 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 381666012458 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 381666012459 ATP binding site [chemical binding]; other site 381666012460 Walker A motif; other site 381666012461 hexamer interface [polypeptide binding]; other site 381666012462 Walker B motif; other site 381666012463 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 381666012464 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 381666012465 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 381666012466 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 381666012467 TPR motif; other site 381666012468 binding surface 381666012469 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 381666012470 Predicted membrane protein [Function unknown]; Region: COG4655 381666012471 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 381666012472 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 381666012473 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 381666012474 Walker A motif; other site 381666012475 ATP binding site [chemical binding]; other site 381666012476 Walker B motif; other site 381666012477 arginine finger; other site 381666012478 Helix-turn-helix domains; Region: HTH; cl00088 381666012479 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 381666012480 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 381666012481 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 381666012482 active site 381666012483 metal binding site [ion binding]; metal-binding site 381666012484 DNA binding site [nucleotide binding] 381666012485 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 381666012486 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666012487 AAA domain; Region: AAA_23; pfam13476 381666012488 Walker A/P-loop; other site 381666012489 ATP binding site [chemical binding]; other site 381666012490 Q-loop/lid; other site 381666012491 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 381666012492 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666012493 Walker B; other site 381666012494 D-loop; other site 381666012495 H-loop/switch region; other site 381666012496 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 381666012497 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 381666012498 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 381666012499 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 381666012500 dimer interface [polypeptide binding]; other site 381666012501 active site 381666012502 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666012503 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666012504 NAD(P) binding site [chemical binding]; other site 381666012505 active site 381666012506 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012507 NMT1-like family; Region: NMT1_2; cl15260 381666012508 tricarballylate utilization protein B; Provisional; Region: PRK15033 381666012509 tricarballylate dehydrogenase; Validated; Region: PRK08274 381666012510 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 381666012511 Helix-turn-helix domains; Region: HTH; cl00088 381666012512 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 381666012513 putative dimerization interface [polypeptide binding]; other site 381666012514 NMT1-like family; Region: NMT1_2; cl15260 381666012515 FIST N domain; Region: FIST; cl10701 381666012516 FIST C domain; Region: FIST_C; pfam10442 381666012517 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 381666012518 active site lid residues [active] 381666012519 substrate binding pocket [chemical binding]; other site 381666012520 catalytic residues [active] 381666012521 substrate-Mg2+ binding site; other site 381666012522 aspartate-rich region 1; other site 381666012523 aspartate-rich region 2; other site 381666012524 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 381666012525 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 381666012526 catalytic core [active] 381666012527 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666012528 Helix-turn-helix domains; Region: HTH; cl00088 381666012529 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 381666012530 putative dimerization interface [polypeptide binding]; other site 381666012531 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666012532 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 381666012533 dimer interface [polypeptide binding]; other site 381666012534 NADP binding site [chemical binding]; other site 381666012535 catalytic residues [active] 381666012536 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 381666012537 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 381666012538 inhibitor site; inhibition site 381666012539 active site 381666012540 dimer interface [polypeptide binding]; other site 381666012541 catalytic residue [active] 381666012542 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666012543 Helix-turn-helix domains; Region: HTH; cl00088 381666012544 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 381666012545 dimerization interface [polypeptide binding]; other site 381666012546 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012547 NMT1-like family; Region: NMT1_2; cl15260 381666012548 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 381666012549 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 381666012550 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 381666012551 putative active site pocket [active] 381666012552 putative metal binding site [ion binding]; other site 381666012553 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 381666012554 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666012555 Coenzyme A binding pocket [chemical binding]; other site 381666012556 Helix-turn-helix domains; Region: HTH; cl00088 381666012557 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 381666012558 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 381666012559 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 381666012560 FMN binding site [chemical binding]; other site 381666012561 substrate binding site [chemical binding]; other site 381666012562 putative catalytic residue [active] 381666012563 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 381666012564 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 381666012565 Int/Topo IB signature motif; other site 381666012566 DNA binding site [nucleotide binding] 381666012567 active site 381666012568 UDP-glucose 4-epimerase; Region: PLN02240 381666012569 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 381666012570 NAD binding site [chemical binding]; other site 381666012571 homodimer interface [polypeptide binding]; other site 381666012572 active site 381666012573 substrate binding site [chemical binding]; other site 381666012574 H-NS histone family; Region: Histone_HNS; pfam00816 381666012575 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 381666012576 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 381666012577 dimer interface [polypeptide binding]; other site 381666012578 ligand binding site [chemical binding]; other site 381666012579 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 381666012580 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666012581 dimer interface [polypeptide binding]; other site 381666012582 putative CheW interface [polypeptide binding]; other site 381666012583 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666012584 metal binding site [ion binding]; metal-binding site 381666012585 active site 381666012586 I-site; other site 381666012587 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 381666012588 Response regulator receiver domain; Region: Response_reg; pfam00072 381666012589 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666012590 active site 381666012591 phosphorylation site [posttranslational modification] 381666012592 intermolecular recognition site; other site 381666012593 dimerization interface [polypeptide binding]; other site 381666012594 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 381666012595 putative CheA interaction surface; other site 381666012596 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 381666012597 PAS fold; Region: PAS_3; pfam08447 381666012598 putative active site [active] 381666012599 heme pocket [chemical binding]; other site 381666012600 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 381666012601 dimerization interface [polypeptide binding]; other site 381666012602 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 381666012603 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666012604 dimer interface [polypeptide binding]; other site 381666012605 putative CheW interface [polypeptide binding]; other site 381666012606 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 381666012607 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 381666012608 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666012609 dimer interface [polypeptide binding]; other site 381666012610 putative CheW interface [polypeptide binding]; other site 381666012611 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 381666012612 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 381666012613 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 381666012614 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 381666012615 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 381666012616 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 381666012617 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 381666012618 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666012619 ligand binding site [chemical binding]; other site 381666012620 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 381666012621 CheY binding; Region: CheY-binding; pfam09078 381666012622 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 381666012623 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 381666012624 ATP binding site [chemical binding]; other site 381666012625 Mg2+ binding site [ion binding]; other site 381666012626 G-X-G motif; other site 381666012627 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 381666012628 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 381666012629 putative CheA interaction surface; other site 381666012630 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 381666012631 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 381666012632 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; cl16911 381666012633 CheD chemotactic sensory transduction; Region: CheD; cl00810 381666012634 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 381666012635 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666012636 active site 381666012637 phosphorylation site [posttranslational modification] 381666012638 intermolecular recognition site; other site 381666012639 dimerization interface [polypeptide binding]; other site 381666012640 CheB methylesterase; Region: CheB_methylest; pfam01339 381666012641 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 381666012642 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666012643 active site 381666012644 phosphorylation site [posttranslational modification] 381666012645 intermolecular recognition site; other site 381666012646 dimerization interface [polypeptide binding]; other site 381666012647 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 381666012648 haemagglutination activity domain; Region: Haemagg_act; cl05436 381666012649 Flagellar L-ring protein; Region: FlgH; cl00905 381666012650 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 381666012651 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 381666012652 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 381666012653 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 381666012654 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 381666012655 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 381666012656 Surface antigen; Region: Bac_surface_Ag; cl03097 381666012657 TolB amino-terminal domain; Region: TolB_N; cl00639 381666012658 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 381666012659 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 381666012660 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 381666012661 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 381666012662 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 381666012663 FHIPEP family; Region: FHIPEP; pfam00771 381666012664 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 381666012665 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666012666 AAA domain; Region: AAA_31; pfam13614 381666012667 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666012668 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 381666012669 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666012670 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 381666012671 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 381666012672 DNA binding residues [nucleotide binding] 381666012673 Flagellar protein FlhE; Region: FlhE; pfam06366 381666012674 FlgN protein; Region: FlgN; cl09176 381666012675 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 381666012676 SAF-like; Region: SAF_2; pfam13144 381666012677 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 381666012678 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 381666012679 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 381666012680 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 381666012681 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 381666012682 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 381666012683 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 381666012684 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 381666012685 FlgD Ig-like domain; Region: FlgD_ig; cl15790 381666012686 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 381666012687 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 381666012688 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 381666012689 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 381666012690 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 381666012691 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 381666012692 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 381666012693 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 381666012694 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 381666012695 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 381666012696 Flagellar L-ring protein; Region: FlgH; cl00905 381666012697 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 381666012698 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 381666012699 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 381666012700 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12712 381666012701 Rod binding protein; Region: Rod-binding; cl01626 381666012702 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 381666012703 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 381666012704 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 381666012705 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 381666012706 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 381666012707 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 381666012708 trimer interface [polypeptide binding]; other site 381666012709 putative Zn binding site [ion binding]; other site 381666012710 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 381666012711 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 381666012712 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666012713 DNA-binding site [nucleotide binding]; DNA binding site 381666012714 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 381666012715 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666012716 homodimer interface [polypeptide binding]; other site 381666012717 catalytic residue [active] 381666012718 Cupin domain; Region: Cupin_2; cl09118 381666012719 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666012720 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 381666012721 active site 381666012722 intersubunit interface [polypeptide binding]; other site 381666012723 catalytic residue [active] 381666012724 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 381666012725 Dehydratase family; Region: ILVD_EDD; cl00340 381666012726 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 381666012727 trimer interface [polypeptide binding]; other site 381666012728 eyelet of channel; other site 381666012729 extended (e) SDRs; Region: SDR_e; cd08946 381666012730 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 381666012731 NAD(P) binding site [chemical binding]; other site 381666012732 active site 381666012733 substrate binding site [chemical binding]; other site 381666012734 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012735 NMT1-like family; Region: NMT1_2; cl15260 381666012736 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 381666012737 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666012738 DNA-binding site [nucleotide binding]; DNA binding site 381666012739 FCD domain; Region: FCD; cl11656 381666012740 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 381666012741 homotrimer interaction site [polypeptide binding]; other site 381666012742 putative active site [active] 381666012743 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 381666012744 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 381666012745 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666012746 putative substrate translocation pore; other site 381666012747 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666012748 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 381666012749 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 381666012750 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 381666012751 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 381666012752 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666012753 Walker A/P-loop; other site 381666012754 ATP binding site [chemical binding]; other site 381666012755 Q-loop/lid; other site 381666012756 ABC transporter signature motif; other site 381666012757 Walker B; other site 381666012758 D-loop; other site 381666012759 H-loop/switch region; other site 381666012760 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 381666012761 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 381666012762 substrate binding pocket [chemical binding]; other site 381666012763 membrane-bound complex binding site; other site 381666012764 hinge residues; other site 381666012765 selenophosphate synthetase; Provisional; Region: PRK00943 381666012766 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 381666012767 dimerization interface [polypeptide binding]; other site 381666012768 putative ATP binding site [chemical binding]; other site 381666012769 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 381666012770 TIGR03440 family protein; Region: unchr_TIGR03440 381666012771 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 381666012772 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 381666012773 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 381666012774 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 381666012775 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 381666012776 Helix-turn-helix domains; Region: HTH; cl00088 381666012777 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 381666012778 putative dimerization interface [polypeptide binding]; other site 381666012779 threonine synthase; Validated; Region: PRK06260 381666012780 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 381666012781 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666012782 catalytic residue [active] 381666012783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012784 NMT1-like family; Region: NMT1_2; cl15260 381666012785 aromatic amino acid exporter; Provisional; Region: PRK11689 381666012786 EamA-like transporter family; Region: EamA; cl01037 381666012787 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666012788 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 381666012789 putative NAD(P) binding site [chemical binding]; other site 381666012790 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 381666012791 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666012792 NAD(P) binding site [chemical binding]; other site 381666012793 active site 381666012794 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 381666012795 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666012796 Helix-turn-helix domains; Region: HTH; cl00088 381666012797 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666012798 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666012799 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 381666012800 ATP binding site [chemical binding]; other site 381666012801 Mg2+ binding site [ion binding]; other site 381666012802 G-X-G motif; other site 381666012803 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012804 NMT1-like family; Region: NMT1_2; cl15260 381666012805 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 381666012806 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666012807 PYR/PP interface [polypeptide binding]; other site 381666012808 dimer interface [polypeptide binding]; other site 381666012809 TPP binding site [chemical binding]; other site 381666012810 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 381666012811 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 381666012812 TPP-binding site [chemical binding]; other site 381666012813 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666012814 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666012815 DNA-binding site [nucleotide binding]; DNA binding site 381666012816 FCD domain; Region: FCD; cl11656 381666012817 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 381666012818 Sulfatase; Region: Sulfatase; cl10460 381666012819 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 381666012820 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 381666012821 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 381666012822 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 381666012823 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 381666012824 Helix-turn-helix domains; Region: HTH; cl00088 381666012825 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 381666012826 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 381666012827 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 381666012828 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 381666012829 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 381666012830 dimer interface [polypeptide binding]; other site 381666012831 NADP binding site [chemical binding]; other site 381666012832 catalytic residues [active] 381666012833 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666012834 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666012835 putative substrate translocation pore; other site 381666012836 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 381666012837 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 381666012838 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666012839 Helix-turn-helix domains; Region: HTH; cl00088 381666012840 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 381666012841 putative dimerization interface [polypeptide binding]; other site 381666012842 Helix-turn-helix domains; Region: HTH; cl00088 381666012843 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666012844 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666012845 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666012846 Helix-turn-helix domains; Region: HTH; cl00088 381666012847 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 381666012848 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 381666012849 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012850 NMT1-like family; Region: NMT1_2; cl15260 381666012851 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 381666012852 NADP binding site [chemical binding]; other site 381666012853 dimer interface [polypeptide binding]; other site 381666012854 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 381666012855 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 381666012856 substrate binding pocket [chemical binding]; other site 381666012857 membrane-bound complex binding site; other site 381666012858 hinge residues; other site 381666012859 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 381666012860 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012861 NMT1-like family; Region: NMT1_2; cl15260 381666012862 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666012863 Helix-turn-helix domains; Region: HTH; cl00088 381666012864 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 381666012865 putative dimerization interface [polypeptide binding]; other site 381666012866 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 381666012867 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666012868 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666012869 Helix-turn-helix domains; Region: HTH; cl00088 381666012870 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 381666012871 dimerization interface [polypeptide binding]; other site 381666012872 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 381666012873 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 381666012874 Helix-turn-helix domains; Region: HTH; cl00088 381666012875 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 381666012876 dimerization interface [polypeptide binding]; other site 381666012877 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666012878 putative substrate translocation pore; other site 381666012879 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 381666012880 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 381666012881 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 381666012882 ABC transporter; Region: ABC_tran_2; pfam12848 381666012883 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 381666012884 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 381666012885 Isochorismatase family; Region: Isochorismatase; pfam00857 381666012886 catalytic triad [active] 381666012887 dimer interface [polypeptide binding]; other site 381666012888 conserved cis-peptide bond; other site 381666012889 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 381666012890 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 381666012891 Strictosidine synthase; Region: Str_synth; pfam03088 381666012892 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012893 NMT1-like family; Region: NMT1_2; cl15260 381666012894 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 381666012895 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666012896 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 381666012897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012898 NMT1-like family; Region: NMT1_2; cl15260 381666012899 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666012900 Helix-turn-helix domains; Region: HTH; cl00088 381666012901 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666012902 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 381666012903 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; cl09155 381666012904 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 381666012905 putative active site [active] 381666012906 putative catalytic site [active] 381666012907 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 381666012908 active site 2 [active] 381666012909 active site 1 [active] 381666012910 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666012911 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666012912 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666012913 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666012914 active site 381666012915 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 381666012916 active site 381666012917 oxalacetate binding site [chemical binding]; other site 381666012918 citrylCoA binding site [chemical binding]; other site 381666012919 coenzyme A binding site [chemical binding]; other site 381666012920 catalytic triad [active] 381666012921 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 381666012922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666012923 CoA-ligase; Region: Ligase_CoA; cl02894 381666012924 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666012925 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 381666012926 active site 2 [active] 381666012927 active site 1 [active] 381666012928 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666012929 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666012930 active site 381666012931 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666012932 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666012933 NAD(P) binding site [chemical binding]; other site 381666012934 active site 381666012935 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666012936 Helix-turn-helix domains; Region: HTH; cl00088 381666012937 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666012938 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012939 NMT1-like family; Region: NMT1_2; cl15260 381666012940 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 381666012941 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 381666012942 FMN binding site [chemical binding]; other site 381666012943 substrate binding site [chemical binding]; other site 381666012944 putative catalytic residue [active] 381666012945 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 381666012946 enoyl-CoA hydratase; Provisional; Region: PRK09245 381666012947 substrate binding site [chemical binding]; other site 381666012948 oxyanion hole (OAH) forming residues; other site 381666012949 trimer interface [polypeptide binding]; other site 381666012950 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 381666012951 putative FMN binding site [chemical binding]; other site 381666012952 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666012953 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666012954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012955 NMT1-like family; Region: NMT1_2; cl15260 381666012956 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666012957 NMT1-like family; Region: NMT1_2; cl15260 381666012958 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 381666012959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666012960 CoA-ligase; Region: Ligase_CoA; cl02894 381666012961 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666012962 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666012963 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666012964 active site 381666012965 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666012966 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666012967 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666012968 active site 381666012969 Winged helix-turn helix; Region: HTH_29; pfam13551 381666012970 Helix-turn-helix domains; Region: HTH; cl00088 381666012971 Integrase core domain; Region: rve; cl01316 381666012972 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666012973 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 381666012974 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 381666012975 DNA binding residues [nucleotide binding] 381666012976 dimerization interface [polypeptide binding]; other site 381666012977 Response regulator receiver domain; Region: Response_reg; pfam00072 381666012978 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666012979 active site 381666012980 phosphorylation site [posttranslational modification] 381666012981 intermolecular recognition site; other site 381666012982 dimerization interface [polypeptide binding]; other site 381666012983 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 381666012984 cyclase homology domain; Region: CHD; cd07302 381666012985 nucleotidyl binding site; other site 381666012986 metal binding site [ion binding]; metal-binding site 381666012987 dimer interface [polypeptide binding]; other site 381666012988 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 381666012989 PAS fold; Region: PAS_3; pfam08447 381666012990 putative active site [active] 381666012991 heme pocket [chemical binding]; other site 381666012992 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 381666012993 dimer interface [polypeptide binding]; other site 381666012994 phosphorylation site [posttranslational modification] 381666012995 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 381666012996 ATP binding site [chemical binding]; other site 381666012997 Mg2+ binding site [ion binding]; other site 381666012998 G-X-G motif; other site 381666012999 Response regulator receiver domain; Region: Response_reg; pfam00072 381666013000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666013001 active site 381666013002 phosphorylation site [posttranslational modification] 381666013003 intermolecular recognition site; other site 381666013004 dimerization interface [polypeptide binding]; other site 381666013005 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666013006 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666013007 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666013008 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013009 active site 381666013010 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013011 active site 381666013012 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 381666013013 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 381666013014 dimer interface [polypeptide binding]; other site 381666013015 active site 381666013016 enoyl-CoA hydratase; Provisional; Region: PRK06688 381666013017 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 381666013018 substrate binding site [chemical binding]; other site 381666013019 oxyanion hole (OAH) forming residues; other site 381666013020 trimer interface [polypeptide binding]; other site 381666013021 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666013022 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013023 active site 381666013024 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666013025 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666013026 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666013027 active site 381666013028 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666013029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013030 NAD(P) binding site [chemical binding]; other site 381666013031 active site 381666013032 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 381666013033 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013034 CoA-ligase; Region: Ligase_CoA; cl02894 381666013035 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666013036 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013037 Helix-turn-helix domains; Region: HTH; cl00088 381666013038 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 381666013039 dimerization interface [polypeptide binding]; other site 381666013040 substrate binding pocket [chemical binding]; other site 381666013041 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 381666013042 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 381666013043 NAD binding site [chemical binding]; other site 381666013044 homodimer interface [polypeptide binding]; other site 381666013045 homotetramer interface [polypeptide binding]; other site 381666013046 active site 381666013047 enoyl-CoA hydratase; Provisional; Region: PRK09245 381666013048 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 381666013049 substrate binding site [chemical binding]; other site 381666013050 oxyanion hole (OAH) forming residues; other site 381666013051 trimer interface [polypeptide binding]; other site 381666013052 mesaconyl-CoA isomerase; Region: mesacon_CoA_iso; TIGR04253 381666013053 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666013054 formyl-coenzyme A transferase; Provisional; Region: PRK05398 381666013055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013056 NMT1-like family; Region: NMT1_2; cl15260 381666013057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013058 NMT1-like family; Region: NMT1_2; cl15260 381666013059 Helix-turn-helix domains; Region: HTH; cl00088 381666013060 Winged helix-turn helix; Region: HTH_29; pfam13551 381666013061 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 381666013062 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666013063 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 381666013064 DNA binding residues [nucleotide binding] 381666013065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013066 NAD(P) binding site [chemical binding]; other site 381666013067 active site 381666013068 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 381666013069 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666013070 FAD binding site [chemical binding]; other site 381666013071 substrate binding site [chemical binding]; other site 381666013072 catalytic base [active] 381666013073 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666013074 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666013075 active site 381666013076 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 381666013077 putative active site [active] 381666013078 putative catalytic site [active] 381666013079 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013080 NMT1-like family; Region: NMT1_2; cl15260 381666013081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013082 NMT1-like family; Region: NMT1_2; cl15260 381666013083 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666013084 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013085 active site 381666013086 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 381666013087 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 381666013088 FMN binding site [chemical binding]; other site 381666013089 substrate binding site [chemical binding]; other site 381666013090 putative catalytic residue [active] 381666013091 enoyl-CoA hydratase; Provisional; Region: PRK06688 381666013092 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 381666013093 substrate binding site [chemical binding]; other site 381666013094 oxyanion hole (OAH) forming residues; other site 381666013095 trimer interface [polypeptide binding]; other site 381666013096 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 381666013097 salt bridge; other site 381666013098 non-specific DNA binding site [nucleotide binding]; other site 381666013099 sequence-specific DNA binding site [nucleotide binding]; other site 381666013100 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 381666013101 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013102 CoA-ligase; Region: Ligase_CoA; cl02894 381666013103 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666013104 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 381666013105 DUF35 OB-fold domain; Region: DUF35; pfam01796 381666013106 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 381666013107 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 381666013108 active site 381666013109 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 381666013110 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 381666013111 AMP-binding enzyme; Region: AMP-binding; cl15778 381666013112 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 381666013113 trimer interface [polypeptide binding]; other site 381666013114 eyelet of channel; other site 381666013115 choline dehydrogenase; Validated; Region: PRK02106 381666013116 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 381666013117 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 381666013118 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666013119 SCP-2 sterol transfer family; Region: SCP2; cl01225 381666013120 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666013121 Helix-turn-helix domains; Region: HTH; cl00088 381666013122 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666013123 transcriptional regulator EutR; Provisional; Region: PRK10130 381666013124 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 381666013125 active site 381666013126 oxalacetate binding site [chemical binding]; other site 381666013127 citrylCoA binding site [chemical binding]; other site 381666013128 coenzyme A binding site [chemical binding]; other site 381666013129 catalytic triad [active] 381666013130 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 381666013131 active site 2 [active] 381666013132 active site 1 [active] 381666013133 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666013134 Helix-turn-helix domains; Region: HTH; cl00088 381666013135 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666013136 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013137 NMT1-like family; Region: NMT1_2; cl15260 381666013138 enoyl-CoA hydratase; Provisional; Region: PRK09245 381666013139 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 381666013140 substrate binding site [chemical binding]; other site 381666013141 oxyanion hole (OAH) forming residues; other site 381666013142 trimer interface [polypeptide binding]; other site 381666013143 enoyl-CoA hydratase; Provisional; Region: PRK06495 381666013144 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 381666013145 substrate binding site [chemical binding]; other site 381666013146 oxyanion hole (OAH) forming residues; other site 381666013147 trimer interface [polypeptide binding]; other site 381666013148 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 381666013149 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666013150 NAD binding site [chemical binding]; other site 381666013151 catalytic residues [active] 381666013152 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 381666013153 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666013154 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 381666013155 transcriptional activator TtdR; Provisional; Region: PRK09801 381666013156 Helix-turn-helix domains; Region: HTH; cl00088 381666013157 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 381666013158 putative effector binding pocket; other site 381666013159 dimerization interface [polypeptide binding]; other site 381666013160 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 381666013161 Cupin domain; Region: Cupin_2; cl09118 381666013162 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666013163 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666013164 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 381666013165 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 381666013166 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 381666013167 putative active site [active] 381666013168 putative catalytic site [active] 381666013169 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666013170 putative substrate translocation pore; other site 381666013171 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 381666013172 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 381666013173 hypothetical protein; Provisional; Region: PRK08204 381666013174 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 381666013175 active site 381666013176 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 381666013177 homotrimer interaction site [polypeptide binding]; other site 381666013178 putative active site [active] 381666013179 Cytochrome c; Region: Cytochrom_C; cl11414 381666013180 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 381666013181 putative effector binding pocket; other site 381666013182 dimerization interface [polypeptide binding]; other site 381666013183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013184 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 381666013185 Ligand Binding Site [chemical binding]; other site 381666013186 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 381666013187 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 381666013188 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 381666013189 DNA binding site [nucleotide binding] 381666013190 Int/Topo IB signature motif; other site 381666013191 active site 381666013192 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666013193 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 381666013194 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 381666013195 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 381666013196 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 381666013197 amino acid transporter; Region: 2A0306; TIGR00909 381666013198 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 381666013199 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 381666013200 NAD binding site [chemical binding]; other site 381666013201 Phe binding site; other site 381666013202 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 381666013203 Helix-turn-helix domains; Region: HTH; cl00088 381666013204 Helix-turn-helix domains; Region: HTH; cl00088 381666013205 Integrase core domain; Region: rve; cl01316 381666013206 glutathionine S-transferase; Provisional; Region: PRK10542 381666013207 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 381666013208 C-terminal domain interface [polypeptide binding]; other site 381666013209 GSH binding site (G-site) [chemical binding]; other site 381666013210 dimer interface [polypeptide binding]; other site 381666013211 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 381666013212 N-terminal domain interface [polypeptide binding]; other site 381666013213 dimer interface [polypeptide binding]; other site 381666013214 substrate binding pocket (H-site) [chemical binding]; other site 381666013215 Helix-turn-helix domains; Region: HTH; cl00088 381666013216 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 381666013217 dimer interface [polypeptide binding]; other site 381666013218 conserved gate region; other site 381666013219 putative PBP binding loops; other site 381666013220 ABC-ATPase subunit interface; other site 381666013221 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 381666013222 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 381666013223 dimer interface [polypeptide binding]; other site 381666013224 conserved gate region; other site 381666013225 putative PBP binding loops; other site 381666013226 ABC-ATPase subunit interface; other site 381666013227 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 381666013228 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 381666013229 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 381666013230 homotrimer interaction site [polypeptide binding]; other site 381666013231 putative active site [active] 381666013232 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 381666013233 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013234 Helix-turn-helix domains; Region: HTH; cl00088 381666013235 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 381666013236 putative substrate binding pocket [chemical binding]; other site 381666013237 dimerization interface [polypeptide binding]; other site 381666013238 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 381666013239 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 381666013240 metal binding site [ion binding]; metal-binding site 381666013241 putative dimer interface [polypeptide binding]; other site 381666013242 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 381666013243 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; cl09108 381666013244 phosphate binding site [ion binding]; other site 381666013245 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 381666013246 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013247 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 381666013248 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666013249 Walker A/P-loop; other site 381666013250 ATP binding site [chemical binding]; other site 381666013251 Q-loop/lid; other site 381666013252 ABC transporter signature motif; other site 381666013253 Walker B; other site 381666013254 D-loop; other site 381666013255 H-loop/switch region; other site 381666013256 TOBE domain; Region: TOBE_2; cl01440 381666013257 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 381666013258 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 381666013259 NAD(P) binding site [chemical binding]; other site 381666013260 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666013261 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 381666013262 putative C-terminal domain interface [polypeptide binding]; other site 381666013263 putative GSH binding site (G-site) [chemical binding]; other site 381666013264 putative dimer interface [polypeptide binding]; other site 381666013265 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 381666013266 dimer interface [polypeptide binding]; other site 381666013267 N-terminal domain interface [polypeptide binding]; other site 381666013268 putative substrate binding pocket (H-site) [chemical binding]; other site 381666013269 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 381666013270 trimer interface [polypeptide binding]; other site 381666013271 active site 381666013272 dimer interface [polypeptide binding]; other site 381666013273 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 381666013274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013275 His-Xaa-Ser system radical SAM maturase HxsC; Region: rSAM_pair_HxsC; TIGR03977 381666013276 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 381666013277 FeS/SAM binding site; other site 381666013278 His-Xaa-Ser system radical SAM maturase HxsB; Region: rSAM_paired_1; TIGR03978 381666013279 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 381666013280 FeS/SAM binding site; other site 381666013281 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 381666013282 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 381666013283 Cupin domain; Region: Cupin_2; cl09118 381666013284 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666013285 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 381666013286 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 381666013287 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 381666013288 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 381666013289 dimer interface [polypeptide binding]; other site 381666013290 phosphorylation site [posttranslational modification] 381666013291 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 381666013292 ATP binding site [chemical binding]; other site 381666013293 Mg2+ binding site [ion binding]; other site 381666013294 G-X-G motif; other site 381666013295 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 381666013296 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 381666013297 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666013298 catalytic residue [active] 381666013299 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013300 NMT1-like family; Region: NMT1_2; cl15260 381666013301 Helix-turn-helix domains; Region: HTH; cl00088 381666013302 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 381666013303 putative dimerization interface [polypeptide binding]; other site 381666013304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013305 NMT1-like family; Region: NMT1_2; cl15260 381666013306 Sulfatase; Region: Sulfatase; cl10460 381666013307 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 381666013308 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666013309 Helix-turn-helix domains; Region: HTH; cl00088 381666013310 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 381666013311 dimerization interface [polypeptide binding]; other site 381666013312 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666013313 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013314 active site 381666013315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013316 NMT1-like family; Region: NMT1_2; cl15260 381666013317 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666013318 Helix-turn-helix domains; Region: HTH; cl00088 381666013319 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666013320 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666013321 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666013322 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013323 Helix-turn-helix domains; Region: HTH; cl00088 381666013324 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 381666013325 dimerization interface [polypeptide binding]; other site 381666013326 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 381666013327 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 381666013328 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 381666013329 metal binding site [ion binding]; metal-binding site 381666013330 putative dimer interface [polypeptide binding]; other site 381666013331 Helix-turn-helix domains; Region: HTH; cl00088 381666013332 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 381666013333 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 381666013334 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666013335 catalytic residue [active] 381666013336 Flavin Reductases; Region: FlaRed; cl00801 381666013337 4-hydroxyphenylacetate 3-hydroxylase N terminal; Region: HpaB_N; pfam11794 381666013338 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013339 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 381666013340 Cupin domain; Region: Cupin_2; cl09118 381666013341 amidase; Provisional; Region: PRK07056 381666013342 Amidase; Region: Amidase; cl11426 381666013343 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666013344 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 381666013345 putative ligand binding site [chemical binding]; other site 381666013346 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 381666013347 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666013348 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 381666013349 Walker A/P-loop; other site 381666013350 ATP binding site [chemical binding]; other site 381666013351 Q-loop/lid; other site 381666013352 ABC transporter signature motif; other site 381666013353 Walker B; other site 381666013354 D-loop; other site 381666013355 H-loop/switch region; other site 381666013356 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666013357 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 381666013358 Walker A/P-loop; other site 381666013359 ATP binding site [chemical binding]; other site 381666013360 Q-loop/lid; other site 381666013361 ABC transporter signature motif; other site 381666013362 Walker B; other site 381666013363 D-loop; other site 381666013364 H-loop/switch region; other site 381666013365 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 381666013366 TM-ABC transporter signature motif; other site 381666013367 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 381666013368 TM-ABC transporter signature motif; other site 381666013369 PAAR motif; Region: PAAR_motif; cl15808 381666013370 PAAR motif; Region: PAAR_motif; cl15808 381666013371 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 381666013372 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 381666013373 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 381666013374 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 381666013375 N-terminal plug; other site 381666013376 ligand-binding site [chemical binding]; other site 381666013377 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 381666013378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013379 NMT1-like family; Region: NMT1_2; cl15260 381666013380 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013381 NMT1-like family; Region: NMT1_2; cl15260 381666013382 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666013383 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666013384 DNA-binding site [nucleotide binding]; DNA binding site 381666013385 UTRA domain; Region: UTRA; cl01230 381666013386 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 381666013387 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 381666013388 active site 381666013389 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013390 Helix-turn-helix domains; Region: HTH; cl00088 381666013391 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 381666013392 putative effector binding pocket; other site 381666013393 putative dimerization interface [polypeptide binding]; other site 381666013394 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 381666013395 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666013396 putative NAD(P) binding site [chemical binding]; other site 381666013397 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 381666013398 hypothetical protein; Provisional; Region: PRK09040 381666013399 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666013400 ligand binding site [chemical binding]; other site 381666013401 UbiA prenyltransferase family; Region: UbiA; cl00337 381666013402 Domain of unknown function (DUF802); Region: DUF802; pfam05650 381666013403 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 381666013404 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666013405 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 381666013406 C-terminal domain interface [polypeptide binding]; other site 381666013407 GSH binding site (G-site) [chemical binding]; other site 381666013408 dimer interface [polypeptide binding]; other site 381666013409 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 381666013410 N-terminal domain interface [polypeptide binding]; other site 381666013411 dimer interface [polypeptide binding]; other site 381666013412 substrate binding pocket (H-site) [chemical binding]; other site 381666013413 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666013414 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666013415 active site 381666013416 phosphorylation site [posttranslational modification] 381666013417 intermolecular recognition site; other site 381666013418 dimerization interface [polypeptide binding]; other site 381666013419 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 381666013420 DNA binding residues [nucleotide binding] 381666013421 dimerization interface [polypeptide binding]; other site 381666013422 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 381666013423 dimer interface [polypeptide binding]; other site 381666013424 phosphorylation site [posttranslational modification] 381666013425 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 381666013426 ATP binding site [chemical binding]; other site 381666013427 Mg2+ binding site [ion binding]; other site 381666013428 G-X-G motif; other site 381666013429 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666013430 Response regulator receiver domain; Region: Response_reg; pfam00072 381666013431 active site 381666013432 phosphorylation site [posttranslational modification] 381666013433 intermolecular recognition site; other site 381666013434 dimerization interface [polypeptide binding]; other site 381666013435 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 381666013436 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 381666013437 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 381666013438 dimer interface [polypeptide binding]; other site 381666013439 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666013440 ligand binding site [chemical binding]; other site 381666013441 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 381666013442 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 381666013443 substrate binding pocket [chemical binding]; other site 381666013444 membrane-bound complex binding site; other site 381666013445 hinge residues; other site 381666013446 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013447 Helix-turn-helix domains; Region: HTH; cl00088 381666013448 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 381666013449 putative substrate binding pocket [chemical binding]; other site 381666013450 putative dimerization interface [polypeptide binding]; other site 381666013451 amidase; Provisional; Region: PRK08137 381666013452 Amidase; Region: Amidase; cl11426 381666013453 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666013454 Helix-turn-helix domains; Region: HTH; cl00088 381666013455 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 381666013456 dimerization interface [polypeptide binding]; other site 381666013457 substrate binding pocket [chemical binding]; other site 381666013458 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 381666013459 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 381666013460 active site 381666013461 putative substrate binding pocket [chemical binding]; other site 381666013462 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013463 NMT1-like family; Region: NMT1_2; cl15260 381666013464 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666013465 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 381666013466 Phosphoesterase family; Region: Phosphoesterase; cl15450 381666013467 Domain of unknown function (DUF756); Region: DUF756; pfam05506 381666013468 Domain of unknown function (DUF756); Region: DUF756; pfam05506 381666013469 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 381666013470 Helix-turn-helix domains; Region: HTH; cl00088 381666013471 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 381666013472 dimerization interface [polypeptide binding]; other site 381666013473 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 381666013474 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 381666013475 octamer interface [polypeptide binding]; other site 381666013476 active site 381666013477 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013478 NMT1-like family; Region: NMT1_2; cl15260 381666013479 Activator of aromatic catabolism; Region: XylR_N; pfam06505 381666013480 Heme NO binding; Region: HNOB; cl15268 381666013481 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 381666013482 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 381666013483 Walker A motif; other site 381666013484 ATP binding site [chemical binding]; other site 381666013485 Walker B motif; other site 381666013486 arginine finger; other site 381666013487 Helix-turn-helix domains; Region: HTH; cl00088 381666013488 Phenol hydroxylase subunit; Region: Phenol_hyd_sub; pfam06099 381666013489 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 381666013490 dimerization interface [polypeptide binding]; other site 381666013491 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 381666013492 Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain; Region: AAMH_A; cd01057 381666013493 dimerization interface [polypeptide binding]; other site 381666013494 putative path to active site cavity [active] 381666013495 diiron center [ion binding]; other site 381666013496 Phenol hydroxylase conserved region; Region: Phenol_monoox; pfam04663 381666013497 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 381666013498 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 381666013499 catalytic loop [active] 381666013500 iron binding site [ion binding]; other site 381666013501 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 381666013502 FAD binding pocket [chemical binding]; other site 381666013503 FAD binding motif [chemical binding]; other site 381666013504 phosphate binding motif [ion binding]; other site 381666013505 beta-alpha-beta structure motif; other site 381666013506 NAD binding pocket [chemical binding]; other site 381666013507 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 381666013508 catalytic loop [active] 381666013509 iron binding site [ion binding]; other site 381666013510 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 381666013511 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 381666013512 active site 381666013513 metal binding site [ion binding]; metal-binding site 381666013514 C-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_C; cd07243 381666013515 tetramer interface [polypeptide binding]; other site 381666013516 active site 381666013517 Fe binding site [ion binding]; other site 381666013518 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666013519 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 381666013520 NAD binding site [chemical binding]; other site 381666013521 catalytic residues [active] 381666013522 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 381666013523 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 381666013524 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 381666013525 active site 1 [active] 381666013526 dimer interface [polypeptide binding]; other site 381666013527 hexamer interface [polypeptide binding]; other site 381666013528 active site 2 [active] 381666013529 acetaldehyde dehydrogenase; Validated; Region: PRK08300 381666013530 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013531 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 381666013532 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 381666013533 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 381666013534 active site 381666013535 catalytic residues [active] 381666013536 metal binding site [ion binding]; metal-binding site 381666013537 DmpG-like communication domain; Region: DmpG_comm; pfam07836 381666013538 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666013539 serine racemase; Region: PLN02970 381666013540 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 381666013541 tetramer interface [polypeptide binding]; other site 381666013542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666013543 catalytic residue [active] 381666013544 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 381666013545 hypothetical protein; Reviewed; Region: PRK09588 381666013546 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013547 NMT1-like family; Region: NMT1_2; cl15260 381666013548 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666013549 active site 381666013550 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 381666013551 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 381666013552 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 381666013553 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666013554 Helix-turn-helix domains; Region: HTH; cl00088 381666013555 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 381666013556 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 381666013557 dimerization interface [polypeptide binding]; other site 381666013558 active site 381666013559 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 381666013560 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 381666013561 FliP family; Region: FliP; cl00593 381666013562 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 381666013563 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 381666013564 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 381666013565 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 381666013566 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 381666013567 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 381666013568 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 381666013569 substrate binding site [chemical binding]; other site 381666013570 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 381666013571 substrate binding site [chemical binding]; other site 381666013572 ligand binding site [chemical binding]; other site 381666013573 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666013574 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666013575 active site 381666013576 phosphorylation site [posttranslational modification] 381666013577 intermolecular recognition site; other site 381666013578 dimerization interface [polypeptide binding]; other site 381666013579 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 381666013580 DNA binding residues [nucleotide binding] 381666013581 dimerization interface [polypeptide binding]; other site 381666013582 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 381666013583 dimer interface [polypeptide binding]; other site 381666013584 phosphorylation site [posttranslational modification] 381666013585 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 381666013586 ATP binding site [chemical binding]; other site 381666013587 Mg2+ binding site [ion binding]; other site 381666013588 G-X-G motif; other site 381666013589 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 381666013590 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 381666013591 active site 381666013592 phosphorylation site [posttranslational modification] 381666013593 intermolecular recognition site; other site 381666013594 dimerization interface [polypeptide binding]; other site 381666013595 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 381666013596 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 381666013597 C-terminal domain interface [polypeptide binding]; other site 381666013598 GSH binding site (G-site) [chemical binding]; other site 381666013599 dimer interface [polypeptide binding]; other site 381666013600 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 381666013601 dimer interface [polypeptide binding]; other site 381666013602 N-terminal domain interface [polypeptide binding]; other site 381666013603 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 381666013604 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 381666013605 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 381666013606 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 381666013607 oligomeric interface; other site 381666013608 putative active site [active] 381666013609 homodimer interface [polypeptide binding]; other site 381666013610 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 381666013611 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013612 Helix-turn-helix domains; Region: HTH; cl00088 381666013613 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 381666013614 dimerization interface [polypeptide binding]; other site 381666013615 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 381666013616 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666013617 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013618 active site 381666013619 Outer membrane efflux protein; Region: OEP; pfam02321 381666013620 Outer membrane efflux protein; Region: OEP; pfam02321 381666013621 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666013622 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 381666013623 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666013624 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 381666013625 CsbD-like; Region: CsbD; cl15799 381666013626 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666013627 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 381666013628 dimer interface [polypeptide binding]; other site 381666013629 phosphorylation site [posttranslational modification] 381666013630 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 381666013631 ATP binding site [chemical binding]; other site 381666013632 Mg2+ binding site [ion binding]; other site 381666013633 G-X-G motif; other site 381666013634 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 381666013635 active site 381666013636 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666013637 DNA-binding site [nucleotide binding]; DNA binding site 381666013638 UTRA domain; Region: UTRA; cl01230 381666013639 hypothetical protein; Validated; Region: PRK07586 381666013640 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666013641 PYR/PP interface [polypeptide binding]; other site 381666013642 dimer interface [polypeptide binding]; other site 381666013643 TPP binding site [chemical binding]; other site 381666013644 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 381666013645 TPP-binding site [chemical binding]; other site 381666013646 dimer interface [polypeptide binding]; other site 381666013647 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 381666013648 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 381666013649 DUF35 OB-fold domain; Region: DUF35; pfam01796 381666013650 thiolase; Provisional; Region: PRK06158 381666013651 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 381666013652 active site 381666013653 Survival protein SurE; Region: SurE; cl00448 381666013654 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 381666013655 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 381666013656 active site 381666013657 catalytic residues [active] 381666013658 metal binding site [ion binding]; metal-binding site 381666013659 DmpG-like communication domain; Region: DmpG_comm; pfam07836 381666013660 acetaldehyde dehydrogenase; Validated; Region: PRK08300 381666013661 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013662 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 381666013663 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 381666013664 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 381666013665 short chain dehydrogenase; Provisional; Region: PRK07856 381666013666 classical (c) SDRs; Region: SDR_c; cd05233 381666013667 NAD(P) binding site [chemical binding]; other site 381666013668 active site 381666013669 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 381666013670 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; cl12031 381666013671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013672 NAD(P) binding site [chemical binding]; other site 381666013673 active site 381666013674 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 381666013675 dimer interface [polypeptide binding]; other site 381666013676 active site/substrate binding site [active] 381666013677 Helix-turn-helix domains; Region: HTH; cl00088 381666013678 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 381666013679 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 381666013680 metal binding site [ion binding]; metal-binding site 381666013681 putative dimer interface [polypeptide binding]; other site 381666013682 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013683 NMT1-like family; Region: NMT1_2; cl15260 381666013684 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013685 Helix-turn-helix domains; Region: HTH; cl00088 381666013686 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 381666013687 dimerization interface [polypeptide binding]; other site 381666013688 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 381666013689 putative hydrophobic ligand binding site [chemical binding]; other site 381666013690 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 381666013691 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666013692 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 381666013693 glycerate dehydrogenase; Provisional; Region: PRK06932 381666013694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013695 Glycerate kinase family; Region: Gly_kinase; cl00841 381666013696 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013697 NMT1-like family; Region: NMT1_2; cl15260 381666013698 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 381666013699 dimer interface [polypeptide binding]; other site 381666013700 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666013701 metal binding site [ion binding]; metal-binding site 381666013702 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 381666013703 active site 381666013704 catalytic residues [active] 381666013705 metal binding site [ion binding]; metal-binding site 381666013706 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666013707 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666013708 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013709 Helix-turn-helix domains; Region: HTH; cl00088 381666013710 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 381666013711 putative dimerization interface [polypeptide binding]; other site 381666013712 glutamine synthetase, type I; Region: GlnA; TIGR00653 381666013713 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 381666013714 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 381666013715 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 381666013716 Helix-turn-helix domains; Region: HTH; cl00088 381666013717 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 381666013718 dimerization interface [polypeptide binding]; other site 381666013719 substrate binding pocket [chemical binding]; other site 381666013720 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 381666013721 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666013722 catalytic residue [active] 381666013723 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666013724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666013725 active site 381666013726 phosphorylation site [posttranslational modification] 381666013727 intermolecular recognition site; other site 381666013728 dimerization interface [polypeptide binding]; other site 381666013729 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 381666013730 DNA binding residues [nucleotide binding] 381666013731 dimerization interface [polypeptide binding]; other site 381666013732 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 381666013733 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666013734 Histidine kinase; Region: HisKA_3; pfam07730 381666013735 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 381666013736 ATP binding site [chemical binding]; other site 381666013737 Mg2+ binding site [ion binding]; other site 381666013738 G-X-G motif; other site 381666013739 Isochorismatase family; Region: Isochorismatase; pfam00857 381666013740 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 381666013741 catalytic triad [active] 381666013742 conserved cis-peptide bond; other site 381666013743 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 381666013744 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 381666013745 DNA binding residues [nucleotide binding] 381666013746 dimerization interface [polypeptide binding]; other site 381666013747 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 381666013748 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 381666013749 CysD dimerization site [polypeptide binding]; other site 381666013750 G1 box; other site 381666013751 putative GEF interaction site [polypeptide binding]; other site 381666013752 GTP/Mg2+ binding site [chemical binding]; other site 381666013753 Switch I region; other site 381666013754 G2 box; other site 381666013755 G3 box; other site 381666013756 Switch II region; other site 381666013757 G4 box; other site 381666013758 G5 box; other site 381666013759 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 381666013760 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 381666013761 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 important for the assimilation of...; Region: APSK; cd02027 381666013762 ligand-binding site [chemical binding]; other site 381666013763 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 381666013764 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 381666013765 Active Sites [active] 381666013766 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 381666013767 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666013768 classical (c) SDRs; Region: SDR_c; cd05233 381666013769 NAD(P) binding site [chemical binding]; other site 381666013770 active site 381666013771 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 381666013772 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 381666013773 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; cl00522 381666013774 dimerization interface [polypeptide binding]; other site 381666013775 active site 381666013776 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; cl12031 381666013777 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 381666013778 substrate binding pocket [chemical binding]; other site 381666013779 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 381666013780 classical (c) SDRs; Region: SDR_c; cd05233 381666013781 NAD(P) binding site [chemical binding]; other site 381666013782 active site 381666013783 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 381666013784 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 381666013785 DNA binding residues [nucleotide binding] 381666013786 dimerization interface [polypeptide binding]; other site 381666013787 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 381666013788 active site 381666013789 metal binding site [ion binding]; metal-binding site 381666013790 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 381666013791 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 381666013792 Naphthocyclinone hydroxylase; Region: NcnH; cd01159 381666013793 Flavin binding site [chemical binding]; other site 381666013794 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 381666013795 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013796 Flavin Reductases; Region: FlaRed; cl00801 381666013797 hypothetical protein; Validated; Region: PRK07121 381666013798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013799 short chain dehydrogenase; Validated; Region: PRK07069 381666013800 NAD(P) binding site [chemical binding]; other site 381666013801 active site 381666013802 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 381666013803 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 381666013804 FAD binding pocket [chemical binding]; other site 381666013805 FAD binding motif [chemical binding]; other site 381666013806 phosphate binding motif [ion binding]; other site 381666013807 beta-alpha-beta structure motif; other site 381666013808 NAD(p) ribose binding residues [chemical binding]; other site 381666013809 NAD binding pocket [chemical binding]; other site 381666013810 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 381666013811 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 381666013812 catalytic loop [active] 381666013813 iron binding site [ion binding]; other site 381666013814 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 381666013815 AMP-binding enzyme; Region: AMP-binding; cl15778 381666013816 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666013817 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 381666013818 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013819 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 381666013820 NAD(P) binding site [chemical binding]; other site 381666013821 active site 381666013822 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 381666013823 sorbitol dehydrogenase; Provisional; Region: PRK07067 381666013824 classical (c) SDRs; Region: SDR_c; cd05233 381666013825 NAD(P) binding site [chemical binding]; other site 381666013826 active site 381666013827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013828 short chain dehydrogenase; Validated; Region: PRK07069 381666013829 NAD(P) binding site [chemical binding]; other site 381666013830 active site 381666013831 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 381666013832 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013833 NAD(P) binding site [chemical binding]; other site 381666013834 active site 381666013835 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666013836 classical (c) SDRs; Region: SDR_c; cd05233 381666013837 NAD(P) binding site [chemical binding]; other site 381666013838 active site 381666013839 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 381666013840 DNA binding residues [nucleotide binding] 381666013841 dimerization interface [polypeptide binding]; other site 381666013842 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 381666013843 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 381666013844 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 381666013845 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 381666013846 active site 381666013847 Fe binding site [ion binding]; other site 381666013848 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 381666013849 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 381666013850 enoyl-CoA hydratase; Provisional; Region: PRK08290 381666013851 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 381666013852 substrate binding site [chemical binding]; other site 381666013853 oxyanion hole (OAH) forming residues; other site 381666013854 trimer interface [polypeptide binding]; other site 381666013855 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 381666013856 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 381666013857 FMN binding site [chemical binding]; other site 381666013858 substrate binding site [chemical binding]; other site 381666013859 putative catalytic residue [active] 381666013860 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 381666013861 enoyl-CoA hydratase; Provisional; Region: PRK06495 381666013862 substrate binding site [chemical binding]; other site 381666013863 oxyanion hole (OAH) forming residues; other site 381666013864 trimer interface [polypeptide binding]; other site 381666013865 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666013866 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 381666013867 FAD binding site [chemical binding]; other site 381666013868 substrate binding site [chemical binding]; other site 381666013869 catalytic base [active] 381666013870 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666013871 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666013872 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013873 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 381666013874 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 381666013875 dimer interface [polypeptide binding]; other site 381666013876 active site 381666013877 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013878 NAD(P) binding site [chemical binding]; other site 381666013879 active site 381666013880 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666013881 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666013882 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666013883 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666013884 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013885 active site 381666013886 short chain dehydrogenase; Provisional; Region: PRK07831 381666013887 classical (c) SDRs; Region: SDR_c; cd05233 381666013888 NAD(P) binding site [chemical binding]; other site 381666013889 active site 381666013890 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 381666013891 putative active site [active] 381666013892 putative catalytic site [active] 381666013893 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 381666013894 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 381666013895 dimer interface [polypeptide binding]; other site 381666013896 active site 381666013897 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 381666013898 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 381666013899 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 381666013900 active site 381666013901 FMN binding site [chemical binding]; other site 381666013902 substrate binding site [chemical binding]; other site 381666013903 putative catalytic residue [active] 381666013904 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 381666013905 iron-sulfur cluster [ion binding]; other site 381666013906 [2Fe-2S] cluster binding site [ion binding]; other site 381666013907 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013908 NAD(P) binding site [chemical binding]; other site 381666013909 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 381666013910 active site 381666013911 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 381666013912 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666013913 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666013914 active site 381666013915 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666013916 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 381666013917 FAD binding site [chemical binding]; other site 381666013918 substrate binding site [chemical binding]; other site 381666013919 catalytic base [active] 381666013920 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666013921 AMP-binding enzyme; Region: AMP-binding; cl15778 381666013922 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666013923 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013924 NMT1-like family; Region: NMT1_2; cl15260 381666013925 Uncharacterized conserved protein [Function unknown]; Region: COG3777 381666013926 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 381666013927 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 381666013928 active site 2 [active] 381666013929 active site 1 [active] 381666013930 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; cl09155 381666013931 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 381666013932 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666013933 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666013934 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666013935 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013936 active site 381666013937 MgtC family; Region: MgtC; pfam02308 381666013938 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 381666013939 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666013940 Helix-turn-helix domains; Region: HTH; cl00088 381666013941 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 381666013942 putative dimerization interface [polypeptide binding]; other site 381666013943 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666013944 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 381666013945 NAD(P) binding site [chemical binding]; other site 381666013946 active site 381666013947 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666013948 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666013949 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 bacteriocins; Region: Peptidase_C39_likeD; cd02421 381666013950 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 381666013951 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 381666013952 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 381666013953 Walker A/P-loop; other site 381666013954 ATP binding site [chemical binding]; other site 381666013955 Q-loop/lid; other site 381666013956 ABC transporter signature motif; other site 381666013957 Walker B; other site 381666013958 D-loop; other site 381666013959 H-loop/switch region; other site 381666013960 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 381666013961 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666013962 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666013963 VCBS repeat; Region: VCBS_repeat; TIGR01965 381666013964 VCBS repeat; Region: VCBS_repeat; TIGR01965 381666013965 VCBS repeat; Region: VCBS_repeat; TIGR01965 381666013966 VCBS repeat; Region: VCBS_repeat; TIGR01965 381666013967 VCBS repeat; Region: VCBS_repeat; TIGR01965 381666013968 VCBS repeat; Region: VCBS_repeat; TIGR01965 381666013969 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 381666013970 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 381666013971 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 381666013972 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666013973 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666013974 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666013975 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013976 NMT1-like family; Region: NMT1_2; cl15260 381666013977 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 381666013978 AMP-binding enzyme; Region: AMP-binding; cl15778 381666013979 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666013980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666013981 NMT1-like family; Region: NMT1_2; cl15260 381666013982 enoyl-CoA hydratase; Provisional; Region: PRK06688 381666013983 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 381666013984 substrate binding site [chemical binding]; other site 381666013985 oxyanion hole (OAH) forming residues; other site 381666013986 trimer interface [polypeptide binding]; other site 381666013987 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666013988 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013989 active site 381666013990 PrkA family serine protein kinase; Provisional; Region: PRK15455 381666013991 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 381666013992 Uncharacterized conserved protein [Function unknown]; Region: COG2718 381666013993 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 381666013994 SpoVR family protein; Provisional; Region: PRK11767 381666013995 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 381666013996 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013997 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666013998 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666013999 active site 381666014000 NMT1-like family; Region: NMT1_2; cl15260 381666014001 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 381666014002 active site 2 [active] 381666014003 active site 1 [active] 381666014004 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666014005 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666014006 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 381666014007 Helix-turn-helix domains; Region: HTH; cl00088 381666014008 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 381666014009 dimerization interface [polypeptide binding]; other site 381666014010 substrate binding pocket [chemical binding]; other site 381666014011 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 381666014012 DNA binding residues [nucleotide binding] 381666014013 dimerization interface [polypeptide binding]; other site 381666014014 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 381666014015 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 381666014016 oligomeric interface; other site 381666014017 putative active site [active] 381666014018 homodimer interface [polypeptide binding]; other site 381666014019 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 381666014020 Mechanosensitive ion channel; Region: MS_channel; pfam00924 381666014021 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014022 NAD(P) binding site [chemical binding]; other site 381666014023 active site 381666014024 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666014025 AMP-binding enzyme; Region: AMP-binding; cl15778 381666014026 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666014027 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666014028 Helix-turn-helix domains; Region: HTH; cl00088 381666014029 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666014030 Helix-turn-helix domains; Region: HTH; cl00088 381666014031 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 381666014032 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666014033 Walker A/P-loop; other site 381666014034 ATP binding site [chemical binding]; other site 381666014035 Q-loop/lid; other site 381666014036 ABC transporter signature motif; other site 381666014037 Walker B; other site 381666014038 D-loop; other site 381666014039 H-loop/switch region; other site 381666014040 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666014041 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 381666014042 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666014043 Walker A/P-loop; other site 381666014044 ATP binding site [chemical binding]; other site 381666014045 Q-loop/lid; other site 381666014046 ABC transporter signature motif; other site 381666014047 Walker B; other site 381666014048 D-loop; other site 381666014049 H-loop/switch region; other site 381666014050 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666014051 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 381666014052 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 381666014053 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 381666014054 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 381666014055 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 381666014056 dimer interface [polypeptide binding]; other site 381666014057 conserved gate region; other site 381666014058 putative PBP binding loops; other site 381666014059 ABC-ATPase subunit interface; other site 381666014060 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 381666014061 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 381666014062 dimer interface [polypeptide binding]; other site 381666014063 conserved gate region; other site 381666014064 putative PBP binding loops; other site 381666014065 ABC-ATPase subunit interface; other site 381666014066 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666014067 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666014068 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666014069 active site 381666014070 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666014071 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666014072 active site 381666014073 MFS/sugar transport protein; Region: MFS_2; pfam13347 381666014074 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666014075 putative substrate translocation pore; other site 381666014076 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 381666014077 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 381666014078 substrate binding site [chemical binding]; other site 381666014079 oxyanion hole (OAH) forming residues; other site 381666014080 trimer interface [polypeptide binding]; other site 381666014081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014082 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666014083 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666014084 Protein of unknown function (DUF421); Region: DUF421; cl00990 381666014085 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666014086 NMT1-like family; Region: NMT1_2; cl15260 381666014087 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 381666014088 trimer interface [polypeptide binding]; other site 381666014089 eyelet of channel; other site 381666014090 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 becoming...; Region: Lipase; cl14883 381666014091 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666014092 Acyl transferase domain; Region: Acyl_transf_1; cl08282 381666014093 nucleophilic elbow; other site 381666014094 catalytic triad; other site 381666014095 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 381666014096 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 381666014097 iron-sulfur cluster [ion binding]; other site 381666014098 [2Fe-2S] cluster binding site [ion binding]; other site 381666014099 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 381666014100 hydrophobic ligand binding site; other site 381666014101 short chain dehydrogenase; Provisional; Region: PRK12939 381666014102 classical (c) SDRs; Region: SDR_c; cd05233 381666014103 NAD(P) binding site [chemical binding]; other site 381666014104 active site 381666014105 Cupin domain; Region: Cupin_2; cl09118 381666014106 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666014107 Helix-turn-helix domains; Region: HTH; cl00088 381666014108 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666014109 short chain dehydrogenase; Provisional; Region: PRK07062 381666014110 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 381666014111 putative NAD(P) binding site [chemical binding]; other site 381666014112 putative active site [active] 381666014113 hypothetical protein; Provisional; Region: PRK07064 381666014114 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666014115 PYR/PP interface [polypeptide binding]; other site 381666014116 dimer interface [polypeptide binding]; other site 381666014117 TPP binding site [chemical binding]; other site 381666014118 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 381666014119 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 381666014120 TPP-binding site [chemical binding]; other site 381666014121 L-aspartate dehydrogenase; Provisional; Region: PRK13303 381666014122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014123 Domain of unknown function DUF108; Region: DUF108; pfam01958 381666014124 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666014125 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 381666014126 NAD(P) binding site [chemical binding]; other site 381666014127 catalytic residues [active] 381666014128 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 381666014129 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666014130 putative active site [active] 381666014131 putative metal binding site [ion binding]; other site 381666014132 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 381666014133 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 381666014134 FMN-binding pocket [chemical binding]; other site 381666014135 flavin binding motif; other site 381666014136 phosphate binding motif [ion binding]; other site 381666014137 beta-alpha-beta structure motif; other site 381666014138 NAD binding pocket [chemical binding]; other site 381666014139 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 381666014140 catalytic loop [active] 381666014141 iron binding site [ion binding]; other site 381666014142 benzoate transport; Region: 2A0115; TIGR00895 381666014143 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666014144 putative substrate translocation pore; other site 381666014145 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666014146 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666014147 Helix-turn-helix domains; Region: HTH; cl00088 381666014148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666014149 NMT1-like family; Region: NMT1_2; cl15260 381666014150 4-hydroxybenzoyl-CoA reductase, alpha subunit; Region: 4hydrxCoA_A; TIGR03194 381666014151 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 381666014152 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666014153 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 381666014154 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 381666014155 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666014156 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 381666014157 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666014158 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 381666014159 putative hydrophobic ligand binding site [chemical binding]; other site 381666014160 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666014161 Helix-turn-helix domains; Region: HTH; cl00088 381666014162 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666014163 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666014164 NMT1-like family; Region: NMT1_2; cl15260 381666014165 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666014166 Helix-turn-helix domains; Region: HTH; cl00088 381666014167 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666014168 salicylate hydroxylase; Provisional; Region: PRK06475 381666014169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014170 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666014171 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666014172 active site 381666014173 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 381666014174 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666014175 active site 381666014176 acyl-CoA synthetase; Provisional; Region: PRK13391 381666014177 AMP-binding enzyme; Region: AMP-binding; cl15778 381666014178 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666014179 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 381666014180 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 381666014181 DNA binding residues [nucleotide binding] 381666014182 dimerization interface [polypeptide binding]; other site 381666014183 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 381666014184 putative FMN binding site [chemical binding]; other site 381666014185 enoyl-CoA hydratase; Provisional; Region: PRK08260 381666014186 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 381666014187 substrate binding site [chemical binding]; other site 381666014188 oxyanion hole (OAH) forming residues; other site 381666014189 trimer interface [polypeptide binding]; other site 381666014190 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 381666014191 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 381666014192 FMN binding site [chemical binding]; other site 381666014193 substrate binding site [chemical binding]; other site 381666014194 putative catalytic residue [active] 381666014195 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 381666014196 CoenzymeA binding site [chemical binding]; other site 381666014197 subunit interaction site [polypeptide binding]; other site 381666014198 PHB binding site; other site 381666014199 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 381666014200 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 381666014201 dimer interface [polypeptide binding]; other site 381666014202 active site 381666014203 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 381666014204 catalytic core [active] 381666014205 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 381666014206 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666014207 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 381666014208 putative effector binding pocket; other site 381666014209 putative dimerization interface [polypeptide binding]; other site 381666014210 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666014211 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 381666014212 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 381666014213 N-terminal domain interface [polypeptide binding]; other site 381666014214 dimer interface [polypeptide binding]; other site 381666014215 substrate binding pocket (H-site) [chemical binding]; other site 381666014216 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 381666014217 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 381666014218 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666014219 NMT1-like family; Region: NMT1_2; cl15260 381666014220 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 381666014221 active site 381666014222 catalytic site [active] 381666014223 substrate binding site [chemical binding]; other site 381666014224 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 381666014225 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 381666014226 GIY-YIG motif/motif A; other site 381666014227 active site 381666014228 catalytic site [active] 381666014229 putative DNA binding site [nucleotide binding]; other site 381666014230 metal binding site [ion binding]; metal-binding site 381666014231 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 381666014232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666014233 NMT1-like family; Region: NMT1_2; cl15260 381666014234 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 381666014235 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 381666014236 [4Fe-4S] binding site [ion binding]; other site 381666014237 molybdopterin cofactor binding site; other site 381666014238 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 381666014239 molybdopterin cofactor binding site; other site 381666014240 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 381666014241 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 381666014242 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 381666014243 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666014244 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 381666014245 nitrite reductase subunit NirD; Provisional; Region: PRK14989 381666014246 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666014247 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 381666014248 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 381666014249 nitrate transmembrane transporter; Provisional; Region: PLN00028 381666014250 Helix-turn-helix domains; Region: HTH; cl00088 381666014251 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666014252 threonine and homoserine efflux system; Provisional; Region: PRK10532 381666014253 EamA-like transporter family; Region: EamA; cl01037 381666014254 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 381666014255 metal binding site 2 [ion binding]; metal-binding site 381666014256 putative DNA binding helix; other site 381666014257 metal binding site 1 [ion binding]; metal-binding site 381666014258 dimer interface [polypeptide binding]; other site 381666014259 structural Zn2+ binding site [ion binding]; other site 381666014260 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 381666014261 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 381666014262 N-terminal plug; other site 381666014263 ligand-binding site [chemical binding]; other site 381666014264 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 381666014265 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666014266 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 381666014267 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 381666014268 DXD motif; other site 381666014269 PilZ domain; Region: PilZ; cl01260 381666014270 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 381666014271 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666014272 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666014273 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 381666014274 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 381666014275 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 381666014276 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 381666014277 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 381666014278 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 381666014279 putative active site [active] 381666014280 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 381666014281 nucleoside/Zn binding site; other site 381666014282 dimer interface [polypeptide binding]; other site 381666014283 catalytic motif [active] 381666014284 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 381666014285 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 381666014286 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 381666014287 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 381666014288 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666014289 Helix-turn-helix domains; Region: HTH; cl00088 381666014290 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 381666014291 inter-subunit interface; other site 381666014292 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 381666014293 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 381666014294 iron-sulfur cluster [ion binding]; other site 381666014295 [2Fe-2S] cluster binding site [ion binding]; other site 381666014296 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 381666014297 putative alpha subunit interface [polypeptide binding]; other site 381666014298 putative active site [active] 381666014299 putative substrate binding site [chemical binding]; other site 381666014300 Fe binding site [ion binding]; other site 381666014301 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 381666014302 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666014303 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 381666014304 [2Fe-2S] cluster binding site [ion binding]; other site 381666014305 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 381666014306 TM-ABC transporter signature motif; other site 381666014307 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 381666014308 TM-ABC transporter signature motif; other site 381666014309 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666014310 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 381666014311 Walker A/P-loop; other site 381666014312 ATP binding site [chemical binding]; other site 381666014313 Q-loop/lid; other site 381666014314 ABC transporter signature motif; other site 381666014315 Walker B; other site 381666014316 D-loop; other site 381666014317 H-loop/switch region; other site 381666014318 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666014319 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 381666014320 Walker A/P-loop; other site 381666014321 ATP binding site [chemical binding]; other site 381666014322 Q-loop/lid; other site 381666014323 ABC transporter signature motif; other site 381666014324 Walker B; other site 381666014325 D-loop; other site 381666014326 H-loop/switch region; other site 381666014327 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666014328 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 381666014329 putative ligand binding site [chemical binding]; other site 381666014330 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666014331 putative substrate translocation pore; other site 381666014332 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666014333 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 381666014334 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666014335 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666014336 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 381666014337 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 381666014338 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 381666014339 Isochorismatase family; Region: Isochorismatase; pfam00857 381666014340 catalytic triad [active] 381666014341 substrate binding site [chemical binding]; other site 381666014342 domain interfaces; other site 381666014343 conserved cis-peptide bond; other site 381666014344 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666014345 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 381666014346 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666014347 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 381666014348 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666014349 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 381666014350 catalytic loop [active] 381666014351 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 381666014352 iron binding site [ion binding]; other site 381666014353 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666014354 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 381666014355 putative hydrophobic ligand binding site [chemical binding]; other site 381666014356 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 381666014357 sequence-specific DNA binding site [nucleotide binding]; other site 381666014358 salt bridge; other site 381666014359 Cupin domain; Region: Cupin_2; cl09118 381666014360 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 381666014361 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 381666014362 substrate-cofactor binding pocket; other site 381666014363 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666014364 catalytic residue [active] 381666014365 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 381666014366 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 381666014367 NAD binding site [chemical binding]; other site 381666014368 homodimer interface [polypeptide binding]; other site 381666014369 active site 381666014370 putative substrate binding site [chemical binding]; other site 381666014371 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 381666014372 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 381666014373 DNA binding residues [nucleotide binding] 381666014374 dimerization interface [polypeptide binding]; other site 381666014375 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666014376 NMT1-like family; Region: NMT1_2; cl15260 381666014377 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 381666014378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014379 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 381666014380 L-serine binding site [chemical binding]; other site 381666014381 ACT domain interface; other site 381666014382 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 381666014383 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 381666014384 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 381666014385 Helix-turn-helix domains; Region: HTH; cl00088 381666014386 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 381666014387 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 381666014388 dimerization interface [polypeptide binding]; other site 381666014389 Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP); Region: HEPD; cd08182 381666014390 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 381666014391 putative active site [active] 381666014392 metal binding site [ion binding]; metal-binding site 381666014393 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 381666014394 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666014395 putative substrate translocation pore; other site 381666014396 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666014397 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 381666014398 NAD(P) binding site [chemical binding]; other site 381666014399 catalytic residues [active] 381666014400 acetyl-CoA synthetase; Provisional; Region: PRK00174 381666014401 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 381666014402 AMP-binding enzyme; Region: AMP-binding; cl15778 381666014403 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666014404 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 381666014405 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 381666014406 PhoU domain; Region: PhoU; pfam01895 381666014407 Sulfatase; Region: Sulfatase; cl10460 381666014408 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 381666014409 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666014410 Helix-turn-helix domains; Region: HTH; cl00088 381666014411 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 381666014412 dimerization interface [polypeptide binding]; other site 381666014413 substrate binding pocket [chemical binding]; other site 381666014414 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666014415 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 381666014416 ligand binding site [chemical binding]; other site 381666014417 flexible hinge region; other site 381666014418 Helix-turn-helix domains; Region: HTH; cl00088 381666014419 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 381666014420 intersubunit interface [polypeptide binding]; other site 381666014421 active site 381666014422 Zn2+ binding site [ion binding]; other site 381666014423 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 381666014424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014425 PhoD-like phosphatase; Region: PhoD; pfam09423 381666014426 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 381666014427 putative active site [active] 381666014428 putative metal binding site [ion binding]; other site 381666014429 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 381666014430 PhoD-like phosphatase; Region: PhoD; pfam09423 381666014431 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 381666014432 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 381666014433 Ligand Binding Site [chemical binding]; other site 381666014434 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666014435 NMT1-like family; Region: NMT1_2; cl15260 381666014436 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666014437 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 381666014438 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 381666014439 Helix-turn-helix domains; Region: HTH; cl00088 381666014440 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 381666014441 dimerization interface [polypeptide binding]; other site 381666014442 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666014443 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666014444 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 381666014445 substrate binding site [chemical binding]; other site 381666014446 oxyanion hole (OAH) forming residues; other site 381666014447 trimer interface [polypeptide binding]; other site 381666014448 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666014449 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 381666014450 active site 381666014451 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666014452 active site 381666014453 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666014454 NMT1-like family; Region: NMT1_2; cl15260 381666014455 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 381666014456 trimer interface [polypeptide binding]; other site 381666014457 eyelet of channel; other site 381666014458 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 381666014459 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 381666014460 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 381666014461 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 381666014462 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 381666014463 putative hydrophobic ligand binding site [chemical binding]; other site 381666014464 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 381666014465 dimerization interface [polypeptide binding]; other site 381666014466 putative DNA binding site [nucleotide binding]; other site 381666014467 putative Zn2+ binding site [ion binding]; other site 381666014468 Cytochrome c; Region: Cytochrom_C; cl11414 381666014469 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 381666014470 sulfite oxidase; Provisional; Region: PLN00177 381666014471 Moco binding site; other site 381666014472 metal coordination site [ion binding]; other site 381666014473 xanthine permease; Region: pbuX; TIGR03173 381666014474 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 381666014475 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 381666014476 active site 381666014477 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 381666014478 Transcriptional regulators [Transcription]; Region: PurR; COG1609 381666014479 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 381666014480 DNA binding site [nucleotide binding] 381666014481 domain linker motif; other site 381666014482 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 381666014483 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666014484 Helix-turn-helix domains; Region: HTH; cl00088 381666014485 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 381666014486 dimerization interface [polypeptide binding]; other site 381666014487 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 381666014488 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 381666014489 Na binding site [ion binding]; other site 381666014490 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 381666014491 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 381666014492 active site 381666014493 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 381666014494 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666014495 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 381666014496 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 381666014497 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666014498 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666014499 Helix-turn-helix domains; Region: HTH; cl00088 381666014500 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 381666014501 dimerization interface [polypeptide binding]; other site 381666014502 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 381666014503 Cupin domain; Region: Cupin_2; cl09118 381666014504 Cupin domain; Region: Cupin_2; cl09118 381666014505 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 381666014506 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 381666014507 C-terminal domain interface [polypeptide binding]; other site 381666014508 GSH binding site (G-site) [chemical binding]; other site 381666014509 putative dimer interface [polypeptide binding]; other site 381666014510 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 381666014511 dimer interface [polypeptide binding]; other site 381666014512 N-terminal domain interface [polypeptide binding]; other site 381666014513 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 381666014514 salicylate hydroxylase; Provisional; Region: PRK08163 381666014515 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014516 benzoate transport; Region: 2A0115; TIGR00895 381666014517 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666014518 putative substrate translocation pore; other site 381666014519 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666014520 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666014521 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666014522 DNA-binding site [nucleotide binding]; DNA binding site 381666014523 FCD domain; Region: FCD; cl11656 381666014524 transcriptional repressor IclR; Provisional; Region: PRK11569 381666014525 Helix-turn-helix domains; Region: HTH; cl00088 381666014526 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666014527 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 381666014528 DctM-like transporters; Region: DctM; pfam06808 381666014529 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 381666014530 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 381666014531 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 381666014532 Amidase; Region: Amidase; cl11426 381666014533 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 381666014534 Protein of unknown function (DUF419); Region: DUF419; cl15265 381666014535 Protein of unknown function (DUF419); Region: DUF419; cl15265 381666014536 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 381666014537 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 381666014538 membrane-bound complex binding site; other site 381666014539 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 381666014540 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 381666014541 substrate binding pocket [chemical binding]; other site 381666014542 membrane-bound complex binding site; other site 381666014543 hinge residues; other site 381666014544 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 381666014545 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 381666014546 Walker A/P-loop; other site 381666014547 ATP binding site [chemical binding]; other site 381666014548 Q-loop/lid; other site 381666014549 ABC transporter signature motif; other site 381666014550 Walker B; other site 381666014551 D-loop; other site 381666014552 H-loop/switch region; other site 381666014553 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 381666014554 dimer interface [polypeptide binding]; other site 381666014555 conserved gate region; other site 381666014556 putative PBP binding loops; other site 381666014557 ABC-ATPase subunit interface; other site 381666014558 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 381666014559 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 381666014560 dimer interface [polypeptide binding]; other site 381666014561 active site 381666014562 catalytic residue [active] 381666014563 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 381666014564 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 381666014565 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666014566 active site 381666014567 phosphorylation site [posttranslational modification] 381666014568 intermolecular recognition site; other site 381666014569 dimerization interface [polypeptide binding]; other site 381666014570 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 381666014571 DNA binding site [nucleotide binding] 381666014572 sensor protein KdpD; Provisional; Region: PRK10490 381666014573 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 381666014574 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 381666014575 Ligand Binding Site [chemical binding]; other site 381666014576 GAF domain; Region: GAF; cl15785 381666014577 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 381666014578 dimer interface [polypeptide binding]; other site 381666014579 phosphorylation site [posttranslational modification] 381666014580 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 381666014581 ATP binding site [chemical binding]; other site 381666014582 Mg2+ binding site [ion binding]; other site 381666014583 G-X-G motif; other site 381666014584 K+-transporting ATPase, c chain; Region: KdpC; cl00944 381666014585 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 381666014586 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 381666014587 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 381666014588 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 381666014589 Helix-turn-helix domains; Region: HTH; cl00088 381666014590 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 381666014591 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; cl12031 381666014592 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666014593 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 381666014594 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 381666014595 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 381666014596 DNA binding residues [nucleotide binding] 381666014597 dimer interface [polypeptide binding]; other site 381666014598 mercury binding site [ion binding]; other site 381666014599 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 381666014600 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 381666014601 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666014602 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666014603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666014604 NMT1-like family; Region: NMT1_2; cl15260 381666014605 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666014606 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666014607 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666014608 active site 381666014609 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666014610 AMP-binding enzyme; Region: AMP-binding; cl15778 381666014611 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666014612 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666014613 Helix-turn-helix domains; Region: HTH; cl00088 381666014614 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 381666014615 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666014616 NMT1-like family; Region: NMT1_2; cl15260 381666014617 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666014618 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666014619 active site 381666014620 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666014621 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666014622 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666014623 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 381666014624 substrate binding site [chemical binding]; other site 381666014625 oxyanion hole (OAH) forming residues; other site 381666014626 trimer interface [polypeptide binding]; other site 381666014627 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666014628 Helix-turn-helix domains; Region: HTH; cl00088 381666014629 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 381666014630 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 381666014631 putative acyl-acceptor binding pocket; other site 381666014632 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 381666014633 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 381666014634 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 381666014635 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 381666014636 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 381666014637 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; cl00279 381666014638 active site 381666014639 NMT1-like family; Region: NMT1_2; cl15260 381666014640 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666014641 NMT1-like family; Region: NMT1_2; cl15260 381666014642 Uncharacterized conserved protein [Function unknown]; Region: COG5361 381666014643 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 381666014644 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 381666014645 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 381666014646 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 381666014647 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 381666014648 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 381666014649 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014650 CoA-ligase; Region: Ligase_CoA; cl02894 381666014651 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666014652 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666014653 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666014654 DNA-binding site [nucleotide binding]; DNA binding site 381666014655 UTRA domain; Region: UTRA; cl01230 381666014656 Protein of unknown function (DUF2880); Region: DUF2880; pfam11082 381666014657 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 381666014658 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 381666014659 Phospholipase D delta; Region: PLN03008 381666014660 putative active site [active] 381666014661 catalytic site [active] 381666014662 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 381666014663 putative active site [active] 381666014664 catalytic site [active] 381666014665 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 381666014666 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 381666014667 Entericidin EcnA/B family; Region: Entericidin; cl02322 381666014668 Cupin domain; Region: Cupin_2; cl09118 381666014669 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666014670 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666014671 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666014672 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666014673 active site 381666014674 Flavin Reductases; Region: FlaRed; cl00801 381666014675 tartronate semialdehyde reductase; Provisional; Region: PRK15059 381666014676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014677 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 381666014678 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 381666014679 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 381666014680 [2Fe-2S] cluster binding site [ion binding]; other site 381666014681 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 381666014682 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666014683 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 381666014684 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 381666014685 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 381666014686 G1 box; other site 381666014687 putative GEF interaction site [polypeptide binding]; other site 381666014688 GTP/Mg2+ binding site [chemical binding]; other site 381666014689 Switch I region; other site 381666014690 G2 box; other site 381666014691 G3 box; other site 381666014692 Switch II region; other site 381666014693 G4 box; other site 381666014694 G5 box; other site 381666014695 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 381666014696 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 381666014697 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 381666014698 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 381666014699 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 381666014700 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666014701 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 381666014702 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 381666014703 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 381666014704 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 381666014705 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 381666014706 heme-binding site [chemical binding]; other site 381666014707 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 381666014708 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666014709 Walker A/P-loop; other site 381666014710 ATP binding site [chemical binding]; other site 381666014711 Q-loop/lid; other site 381666014712 ABC transporter signature motif; other site 381666014713 Walker B; other site 381666014714 D-loop; other site 381666014715 H-loop/switch region; other site 381666014716 CcmB protein; Region: CcmB; cl01016 381666014717 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 381666014718 CcmE; Region: CcmE; cl00994 381666014719 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 381666014720 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 381666014721 catalytic residues [active] 381666014722 central insert; other site 381666014723 Cytochrome C biogenesis protein; Region: CcmH; cl01179 381666014724 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 381666014725 antiporter inner membrane protein; Provisional; Region: PRK11670 381666014726 Domain of unknown function DUF59; Region: DUF59; cl00941 381666014727 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 381666014728 Walker A motif; other site 381666014729 pyruvate kinase; Provisional; Region: PRK06247 381666014730 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; cl09155 381666014731 domain interfaces; other site 381666014732 active site 381666014733 PAS domain S-box; Region: sensory_box; TIGR00229 381666014734 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 381666014735 putative active site [active] 381666014736 heme pocket [chemical binding]; other site 381666014737 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 381666014738 DNA binding residues [nucleotide binding] 381666014739 dimerization interface [polypeptide binding]; other site 381666014740 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666014741 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 381666014742 putative ligand binding site [chemical binding]; other site 381666014743 Putative cyclase; Region: Cyclase; cl00814 381666014744 galactarate dehydratase; Region: galactar-dH20; TIGR03248 381666014745 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 381666014746 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 381666014747 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 381666014748 Helix-turn-helix domains; Region: HTH; cl00088 381666014749 LysR family transcriptional regulator; Provisional; Region: PRK14997 381666014750 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 381666014751 putative effector binding pocket; other site 381666014752 dimerization interface [polypeptide binding]; other site 381666014753 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 381666014754 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 381666014755 dimer interface [polypeptide binding]; other site 381666014756 active site 381666014757 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 381666014758 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 381666014759 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 381666014760 active site 381666014761 dimer interface [polypeptide binding]; other site 381666014762 metal binding site [ion binding]; metal-binding site 381666014763 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 381666014764 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666014766 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 381666014767 Helix-turn-helix domains; Region: HTH; cl00088 381666014768 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 381666014769 dimerization interface [polypeptide binding]; other site 381666014770 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666014771 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666014772 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666014773 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666014774 active site 381666014775 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 381666014776 K+ potassium transporter; Region: K_trans; cl15781 381666014777 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666014778 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 381666014779 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666014780 DNA-binding site [nucleotide binding]; DNA binding site 381666014781 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 381666014782 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666014783 homodimer interface [polypeptide binding]; other site 381666014784 catalytic residue [active] 381666014785 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 381666014786 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 381666014787 inhibitor-cofactor binding pocket; inhibition site 381666014788 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666014789 catalytic residue [active] 381666014790 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666014791 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 381666014792 tetramerization interface [polypeptide binding]; other site 381666014793 NAD(P) binding site [chemical binding]; other site 381666014794 catalytic residues [active] 381666014795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666014796 NMT1-like family; Region: NMT1_2; cl15260 381666014797 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 381666014798 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 381666014799 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666014800 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666014801 enoyl-CoA hydratase; Provisional; Region: PRK05995 381666014802 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 381666014803 substrate binding site [chemical binding]; other site 381666014804 oxyanion hole (OAH) forming residues; other site 381666014805 trimer interface [polypeptide binding]; other site 381666014806 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 381666014807 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666014808 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666014809 DNA-binding site [nucleotide binding]; DNA binding site 381666014810 UTRA domain; Region: UTRA; cl01230 381666014811 Cupin domain; Region: Cupin_2; cl09118 381666014812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666014813 NMT1-like family; Region: NMT1_2; cl15260 381666014814 Helix-turn-helix domains; Region: HTH; cl00088 381666014815 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 381666014816 active site 381666014817 homotetramer interface [polypeptide binding]; other site 381666014818 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 381666014819 active site 381666014820 homotetramer interface [polypeptide binding]; other site 381666014821 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666014822 D-galactonate transporter; Region: 2A0114; TIGR00893 381666014823 putative substrate translocation pore; other site 381666014824 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666014825 Helix-turn-helix domains; Region: HTH; cl00088 381666014826 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 381666014827 dimerization interface [polypeptide binding]; other site 381666014828 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 381666014829 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 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 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666014835 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666014836 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666014837 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 381666014838 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 381666014839 NADP binding site [chemical binding]; other site 381666014840 dimer interface [polypeptide binding]; other site 381666014841 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666014842 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 381666014843 substrate binding pocket [chemical binding]; other site 381666014844 active site 381666014845 iron coordination sites [ion binding]; other site 381666014846 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 381666014847 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666014848 NMT1-like family; Region: NMT1_2; cl15260 381666014849 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 381666014850 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 381666014851 PhnA protein; Region: PhnA; pfam03831 381666014852 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 381666014853 Cytochrome P450; Region: p450; pfam00067 381666014854 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 381666014855 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 381666014856 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 381666014857 FAD binding pocket [chemical binding]; other site 381666014858 FAD binding motif [chemical binding]; other site 381666014859 catalytic residues [active] 381666014860 NAD binding pocket [chemical binding]; other site 381666014861 phosphate binding motif [ion binding]; other site 381666014862 beta-alpha-beta structure motif; other site 381666014863 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 381666014864 Helix-turn-helix domains; Region: HTH; cl00088 381666014865 Cupin domain; Region: Cupin_2; cl09118 381666014866 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666014867 putative substrate translocation pore; other site 381666014868 BT1 family; Region: BT1; pfam03092 381666014869 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 381666014870 proposed catalytic triad [active] 381666014871 active site nucleophile [active] 381666014872 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 381666014873 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 381666014874 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 381666014875 Citrate transporter; Region: CitMHS; pfam03600 381666014876 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 381666014877 tartrate dehydrogenase; Provisional; Region: PRK08194 381666014878 Uncharacterized conserved protein [Function unknown]; Region: COG3025 381666014879 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 381666014880 putative active site [active] 381666014881 putative metal binding residues [ion binding]; other site 381666014882 signature motif; other site 381666014883 putative triphosphate binding site [ion binding]; other site 381666014884 CHAD domain; Region: CHAD; cl10506 381666014885 polyphosphate kinase; Provisional; Region: PRK05443 381666014886 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 381666014887 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 381666014888 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 381666014889 putative domain interface [polypeptide binding]; other site 381666014890 putative active site [active] 381666014891 catalytic site [active] 381666014892 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 381666014893 putative domain interface [polypeptide binding]; other site 381666014894 putative active site [active] 381666014895 catalytic site [active] 381666014896 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 381666014897 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). The cleavage...; Region: Peptidase_C39_like; cl00296 381666014898 putative active site [active] 381666014899 EamA-like transporter family; Region: EamA; cl01037 381666014900 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 381666014901 EamA-like transporter family; Region: EamA; cl01037 381666014902 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666014903 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666014904 putative substrate translocation pore; other site 381666014905 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 381666014906 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 381666014907 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 381666014908 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 381666014909 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 381666014910 D-pathway; other site 381666014911 Putative ubiquinol binding site [chemical binding]; other site 381666014912 Low-spin heme (heme b) binding site [chemical binding]; other site 381666014913 Putative water exit pathway; other site 381666014914 Binuclear center (heme o3/CuB) [ion binding]; other site 381666014915 K-pathway; other site 381666014916 Putative proton exit pathway; other site 381666014917 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 381666014918 Subunit I/III interface [polypeptide binding]; other site 381666014919 Subunit III/IV interface [polypeptide binding]; other site 381666014920 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 381666014921 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666014922 NMT1-like family; Region: NMT1_2; cl15260 381666014923 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 381666014924 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 381666014925 NADP binding site [chemical binding]; other site 381666014926 dimer interface [polypeptide binding]; other site 381666014927 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 381666014928 NMT1-like family; Region: NMT1_2; cl15260 381666014929 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 381666014930 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666014931 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666014932 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666014933 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666014934 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666014935 FCD domain; Region: FCD; cl11656 381666014936 flagellar capping protein; Validated; Region: fliD; PRK08724 381666014937 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 381666014938 PAS domain; Region: PAS_9; pfam13426 381666014939 putative active site [active] 381666014940 heme pocket [chemical binding]; other site 381666014941 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 381666014942 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 381666014943 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666014944 dimer interface [polypeptide binding]; other site 381666014945 putative CheW interface [polypeptide binding]; other site 381666014946 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 381666014947 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 381666014948 N-terminal plug; other site 381666014949 ligand-binding site [chemical binding]; other site 381666014950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666014951 NMT1-like family; Region: NMT1_2; cl15260 381666014952 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 381666014953 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666014954 Walker A/P-loop; other site 381666014955 ATP binding site [chemical binding]; other site 381666014956 Q-loop/lid; other site 381666014957 ABC transporter signature motif; other site 381666014958 Walker B; other site 381666014959 D-loop; other site 381666014960 H-loop/switch region; other site 381666014961 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 381666014962 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 381666014963 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 381666014964 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 381666014965 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 381666014966 ABC-2 type transporter; Region: ABC2_membrane; cl11417 381666014967 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 381666014968 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 381666014969 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666014970 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 381666014971 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 381666014972 dimer interface [polypeptide binding]; other site 381666014973 Trp docking motif [polypeptide binding]; other site 381666014974 active site 381666014975 Cytochrome c; Region: Cytochrom_C; cl11414 381666014976 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 381666014977 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 381666014978 FeS/SAM binding site; other site 381666014979 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 381666014980 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 381666014981 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 381666014982 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666014983 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 381666014984 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666014985 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 381666014986 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 381666014987 Walker A motif; other site 381666014988 ATP binding site [chemical binding]; other site 381666014989 Walker B motif; other site 381666014990 arginine finger; other site 381666014991 Helix-turn-helix domains; Region: HTH; cl00088 381666014992 Cytochrome c; Region: Cytochrom_C; cl11414 381666014993 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666014994 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; cl15306 381666014995 substrate binding pocket [chemical binding]; other site 381666014996 membrane-bound complex binding site; other site 381666014997 hinge residues; other site 381666014998 HipA N-terminal domain; Region: Couple_hipA; cl11853 381666014999 HipA-like N-terminal domain; Region: HipA_N; pfam07805 381666015000 HipA-like C-terminal domain; Region: HipA_C; pfam07804 381666015001 DNA Polymerase Y-family; Region: PolY_like; cd03468 381666015002 active site 381666015003 DNA binding site [nucleotide binding] 381666015004 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 381666015005 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 381666015006 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 381666015007 generic binding surface II; other site 381666015008 generic binding surface I; other site 381666015009 Survival protein SurE; Region: SurE; cl00448 381666015010 XAP5, circadian clock regulator; Region: XAP5; pfam04921 381666015011 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 381666015012 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 381666015013 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 381666015014 putative active site [active] 381666015015 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 381666015016 Phosphoesterase family; Region: Phosphoesterase; cl15450 381666015017 Domain of unknown function (DUF756); Region: DUF756; pfam05506 381666015018 Domain of unknown function (DUF756); Region: DUF756; pfam05506 381666015019 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 381666015020 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666015021 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 381666015022 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 381666015023 Cupin domain; Region: Cupin_2; cl09118 381666015024 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 381666015025 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666015026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666015027 NAD(P) binding site [chemical binding]; other site 381666015028 active site 381666015029 NeuB family; Region: NeuB; cl00496 381666015030 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 381666015031 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 381666015032 trimer interface [polypeptide binding]; other site 381666015033 eyelet of channel; other site 381666015034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666015035 NMT1-like family; Region: NMT1_2; cl15260 381666015036 MltA-interacting protein MipA; Region: MipA; cl01504 381666015037 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666015038 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 381666015039 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 381666015040 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666015041 homodimer interface [polypeptide binding]; other site 381666015042 catalytic residue [active] 381666015043 aromatic amino acid transporter; Provisional; Region: PRK10238 381666015044 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 381666015045 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 381666015046 dimer interface [polypeptide binding]; other site 381666015047 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 381666015048 active site 381666015049 Fe binding site [ion binding]; other site 381666015050 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 381666015051 Helix-turn-helix domains; Region: HTH; cl00088 381666015052 AsnC family; Region: AsnC_trans_reg; pfam01037 381666015053 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 381666015054 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 381666015055 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 381666015056 dimer interface [polypeptide binding]; other site 381666015057 phosphorylation site [posttranslational modification] 381666015058 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 381666015059 ATP binding site [chemical binding]; other site 381666015060 Mg2+ binding site [ion binding]; other site 381666015061 G-X-G motif; other site 381666015062 Response regulator receiver domain; Region: Response_reg; pfam00072 381666015063 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666015064 active site 381666015065 phosphorylation site [posttranslational modification] 381666015066 intermolecular recognition site; other site 381666015067 dimerization interface [polypeptide binding]; other site 381666015068 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666015069 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666015070 active site 381666015071 phosphorylation site [posttranslational modification] 381666015072 intermolecular recognition site; other site 381666015073 dimerization interface [polypeptide binding]; other site 381666015074 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 381666015075 DNA binding residues [nucleotide binding] 381666015076 dimerization interface [polypeptide binding]; other site 381666015077 Helix-turn-helix domains; Region: HTH; cl00088 381666015078 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 381666015079 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 381666015080 active site 381666015081 nucleophile elbow; other site 381666015082 hypothetical protein; Provisional; Region: PRK11239 381666015083 Protein of unknown function, DUF480; Region: DUF480; cl01209 381666015084 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 381666015085 ligand binding site [chemical binding]; other site 381666015086 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 381666015087 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666015088 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 381666015089 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 381666015090 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666015091 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 381666015092 DNA binding site [nucleotide binding] 381666015093 active site 381666015094 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 381666015095 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 381666015096 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 381666015097 hypothetical protein; Provisional; Region: PRK06156 381666015098 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 381666015099 metal binding site [ion binding]; metal-binding site 381666015100 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 381666015101 catalytic triad [active] 381666015102 dimer interface [polypeptide binding]; other site 381666015103 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 381666015104 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 381666015105 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 381666015106 Helix-turn-helix domains; Region: HTH; cl00088 381666015107 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 381666015108 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 381666015109 N-terminal plug; other site 381666015110 ligand-binding site [chemical binding]; other site 381666015111 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 381666015112 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 381666015113 AMP-binding enzyme; Region: AMP-binding; cl15778 381666015114 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666015115 BON domain; Region: BON; cl02771 381666015116 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 381666015117 BON domain; Region: BON; cl02771 381666015118 BON domain; Region: BON; cl02771 381666015119 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 381666015120 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 381666015121 conserved cys residue [active] 381666015122 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666015123 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 381666015124 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 381666015125 metal binding site [ion binding]; metal-binding site 381666015126 dimer interface [polypeptide binding]; other site 381666015127 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 381666015128 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 381666015129 putative active site [active] 381666015130 catalytic site [active] 381666015131 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 381666015132 putative active site [active] 381666015133 catalytic site [active] 381666015134 NMT1/THI5 like; Region: NMT1; pfam09084 381666015135 NMT1-like family; Region: NMT1_2; cl15260 381666015136 NMT1-like family; Region: NMT1_2; cl15260 381666015137 oxidase reductase; Provisional; Region: PTZ00273 381666015138 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 381666015139 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 381666015140 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 381666015141 E-class dimer interface [polypeptide binding]; other site 381666015142 P-class dimer interface [polypeptide binding]; other site 381666015143 active site 381666015144 Cu2+ binding site [ion binding]; other site 381666015145 Zn2+ binding site [ion binding]; other site 381666015146 transcriptional regulator; Provisional; Region: PRK10632 381666015147 Helix-turn-helix domains; Region: HTH; cl00088 381666015148 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 381666015149 putative effector binding pocket; other site 381666015150 putative dimerization interface [polypeptide binding]; other site 381666015151 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 381666015152 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666015153 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666015154 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666015155 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 381666015156 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666015157 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 381666015158 hydrophobic ligand binding site; other site 381666015159 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 381666015160 substrate binding site [chemical binding]; other site 381666015161 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 381666015162 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 381666015163 generic binding surface I; other site 381666015164 generic binding surface II; other site 381666015165 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 381666015166 putative catalytic site [active] 381666015167 putative metal binding site [ion binding]; other site 381666015168 putative phosphate binding site [ion binding]; other site 381666015169 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 381666015170 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 381666015171 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 381666015172 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 381666015173 active site 381666015174 putative substrate binding pocket [chemical binding]; other site 381666015175 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 381666015176 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 381666015177 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666015178 Walker A/P-loop; other site 381666015179 ATP binding site [chemical binding]; other site 381666015180 Q-loop/lid; other site 381666015181 ABC transporter signature motif; other site 381666015182 Walker B; other site 381666015183 D-loop; other site 381666015184 H-loop/switch region; other site 381666015185 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666015186 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 381666015187 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666015188 Walker A/P-loop; other site 381666015189 ATP binding site [chemical binding]; other site 381666015190 Q-loop/lid; other site 381666015191 ABC transporter signature motif; other site 381666015192 Walker B; other site 381666015193 D-loop; other site 381666015194 H-loop/switch region; other site 381666015195 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666015196 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 381666015197 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 381666015198 dimer interface [polypeptide binding]; other site 381666015199 conserved gate region; other site 381666015200 putative PBP binding loops; other site 381666015201 ABC-ATPase subunit interface; other site 381666015202 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 381666015203 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 381666015204 dimer interface [polypeptide binding]; other site 381666015205 conserved gate region; other site 381666015206 putative PBP binding loops; other site 381666015207 ABC-ATPase subunit interface; other site 381666015208 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 381666015209 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 381666015210 Uncharacterized conserved protein [Function unknown]; Region: COG5476 381666015211 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 381666015212 MlrC C-terminus; Region: MlrC_C; pfam07171 381666015213 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 381666015214 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 381666015215 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 381666015216 non-specific DNA binding site [nucleotide binding]; other site 381666015217 salt bridge; other site 381666015218 sequence-specific DNA binding site [nucleotide binding]; other site 381666015219 Cupin domain; Region: Cupin_2; cl09118 381666015220 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 381666015221 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 381666015222 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 381666015223 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 381666015224 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 381666015225 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 381666015226 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 381666015227 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 381666015228 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 381666015229 hypothetical protein; Provisional; Region: PRK08126 381666015230 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 381666015231 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 381666015232 ligand binding site [chemical binding]; other site 381666015233 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666015234 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666015235 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666015236 Helix-turn-helix domains; Region: HTH; cl00088 381666015237 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666015238 classical (c) SDRs; Region: SDR_c; cd05233 381666015239 NAD(P) binding site [chemical binding]; other site 381666015240 active site 381666015241 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666015242 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666015243 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666015244 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 381666015245 active site 381666015246 FMN binding site [chemical binding]; other site 381666015247 substrate binding site [chemical binding]; other site 381666015248 homotetramer interface [polypeptide binding]; other site 381666015249 catalytic residue [active] 381666015250 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666015251 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 381666015252 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666015253 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 381666015254 ligand binding site [chemical binding]; other site 381666015255 flexible hinge region; other site 381666015256 Helix-turn-helix domains; Region: HTH; cl00088 381666015257 acyl-CoA synthetase; Validated; Region: PRK08162 381666015258 AMP-binding enzyme; Region: AMP-binding; cl15778 381666015259 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666015260 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 381666015261 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 381666015262 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 381666015263 dimerization interface [polypeptide binding]; other site 381666015264 putative active cleft [active] 381666015265 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 381666015266 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 becoming...; Region: Lipase; cl14883 381666015267 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 381666015268 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666015269 Helix-turn-helix domains; Region: HTH; cl00088 381666015270 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666015271 Helix-turn-helix domains; Region: HTH; cl00088 381666015272 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; cl12031 381666015273 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 381666015274 putative active site [active] 381666015275 Zn binding site [ion binding]; other site 381666015276 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 381666015277 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 381666015278 Helix-turn-helix domains; Region: HTH; cl00088 381666015279 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 381666015280 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 381666015281 dimerization interface [polypeptide binding]; other site 381666015282 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 381666015283 Phosphoesterase family; Region: Phosphoesterase; cl15450 381666015284 Domain of unknown function (DUF756); Region: DUF756; pfam05506 381666015285 Domain of unknown function (DUF756); Region: DUF756; pfam05506 381666015286 Sulfatase; Region: Sulfatase; cl10460 381666015287 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 381666015288 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666015289 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666015290 DNA-binding site [nucleotide binding]; DNA binding site 381666015291 FCD domain; Region: FCD; cl11656 381666015292 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 381666015293 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 381666015294 homodimer interface [polypeptide binding]; other site 381666015295 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666015296 catalytic residue [active] 381666015297 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 381666015298 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666015299 putative substrate translocation pore; other site 381666015300 amidase; Provisional; Region: PRK08137 381666015301 Amidase; Region: Amidase; cl11426 381666015302 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666015303 putative substrate translocation pore; other site 381666015304 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666015305 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 381666015306 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 381666015307 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 381666015308 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 381666015309 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 381666015310 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 381666015311 tetramerization interface [polypeptide binding]; other site 381666015312 NAD(P) binding site [chemical binding]; other site 381666015313 catalytic residues [active] 381666015314 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 381666015315 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; cl09155 381666015316 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666015317 FAD binding domain; Region: FAD_binding_4; pfam01565 381666015318 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666015319 Helix-turn-helix domains; Region: HTH; cl00088 381666015320 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 381666015321 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 381666015322 FAD binding pocket [chemical binding]; other site 381666015323 FAD binding motif [chemical binding]; other site 381666015324 phosphate binding motif [ion binding]; other site 381666015325 NAD binding pocket [chemical binding]; other site 381666015326 aminotransferase; Validated; Region: PRK08175 381666015327 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 381666015328 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666015329 homodimer interface [polypeptide binding]; other site 381666015330 catalytic residue [active] 381666015331 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666015332 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 381666015333 ligand binding site [chemical binding]; other site 381666015334 flexible hinge region; other site 381666015335 Helix-turn-helix domains; Region: HTH; cl00088 381666015336 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 381666015337 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 381666015338 substrate binding site [chemical binding]; other site 381666015339 oxyanion hole (OAH) forming residues; other site 381666015340 trimer interface [polypeptide binding]; other site 381666015341 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 381666015342 enoyl-CoA hydratase; Provisional; Region: PRK09076 381666015343 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 381666015344 substrate binding site [chemical binding]; other site 381666015345 oxyanion hole (OAH) forming residues; other site 381666015346 trimer interface [polypeptide binding]; other site 381666015347 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666015348 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 381666015349 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 381666015350 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666015351 tetrameric interface [polypeptide binding]; other site 381666015352 NAD binding site [chemical binding]; other site 381666015353 catalytic residues [active] 381666015354 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666015355 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666015356 active site 381666015357 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666015358 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 381666015359 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666015360 Predicted esterase [General function prediction only]; Region: COG0627 381666015361 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; cl12031 381666015362 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 381666015363 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 381666015364 substrate binding site [chemical binding]; other site 381666015365 catalytic Zn binding site [ion binding]; other site 381666015366 NAD binding site [chemical binding]; other site 381666015367 structural Zn binding site [ion binding]; other site 381666015368 dimer interface [polypeptide binding]; other site 381666015369 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 381666015370 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666015371 FAD binding domain; Region: FAD_binding_4; pfam01565 381666015372 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 381666015373 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 381666015374 N- and C-terminal domain interface [polypeptide binding]; other site 381666015375 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 381666015376 active site 381666015377 MgATP binding site [chemical binding]; other site 381666015378 catalytic site [active] 381666015379 metal binding site [ion binding]; metal-binding site 381666015380 carbohydrate binding site [chemical binding]; other site 381666015381 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666015382 putative substrate translocation pore; other site 381666015383 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 381666015384 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 381666015385 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 381666015386 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 381666015387 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 381666015388 active site 381666015389 catalytic tetrad [active] 381666015390 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 381666015391 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 381666015392 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 381666015393 GntP family permease; Region: GntP_permease; pfam02447 381666015394 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 381666015395 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 381666015396 homotrimer interaction site [polypeptide binding]; other site 381666015397 putative active site [active] 381666015398 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 381666015399 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 381666015400 active site 381666015401 putative substrate binding pocket [chemical binding]; other site 381666015402 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 381666015403 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 381666015404 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 381666015405 putative active site [active] 381666015406 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 381666015407 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 381666015408 dimer interface [polypeptide binding]; other site 381666015409 active site 381666015410 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 381666015411 substrate binding site [chemical binding]; other site 381666015412 catalytic residue [active] 381666015413 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 381666015414 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 381666015415 substrate binding site [chemical binding]; other site 381666015416 ATP binding site [chemical binding]; other site 381666015417 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 381666015418 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 381666015419 active site 381666015420 intersubunit interface [polypeptide binding]; other site 381666015421 catalytic residue [active] 381666015422 Entericidin EcnA/B family; Region: Entericidin; cl02322 381666015423 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 381666015424 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 381666015425 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 381666015426 Domain of unknown function DUF21; Region: DUF21; pfam01595 381666015427 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 381666015428 Transporter associated domain; Region: CorC_HlyC; cl08393 381666015429 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 381666015430 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 381666015431 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666015432 D-galactonate transporter; Region: 2A0114; TIGR00893 381666015433 putative substrate translocation pore; other site 381666015434 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666015435 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 381666015436 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 381666015437 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666015438 Helix-turn-helix domains; Region: HTH; cl00088 381666015439 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 381666015440 putative dimerization interface [polypeptide binding]; other site 381666015441 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 381666015442 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 381666015443 non-specific DNA binding site [nucleotide binding]; other site 381666015444 salt bridge; other site 381666015445 sequence-specific DNA binding site [nucleotide binding]; other site 381666015446 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 381666015447 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 381666015448 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 381666015449 Mechanosensitive ion channel; Region: MS_channel; pfam00924 381666015450 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 381666015451 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 381666015452 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 381666015453 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 381666015454 Ligand binding site; other site 381666015455 DXD motif; other site 381666015456 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666015457 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 381666015458 putative substrate translocation pore; other site 381666015459 Mechanosensitive ion channel; Region: MS_channel; pfam00924 381666015460 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 381666015461 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 381666015462 IHF dimer interface [polypeptide binding]; other site 381666015463 IHF - DNA interface [nucleotide binding]; other site 381666015464 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 381666015465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 381666015466 CreA protein; Region: CreA; pfam05981 381666015467 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 381666015468 active site 381666015469 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666015470 AMP-binding enzyme; Region: AMP-binding; cl15778 381666015471 AMP-binding enzyme; Region: AMP-binding; cl15778 381666015472 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 381666015473 classical (c) SDRs; Region: SDR_c; cd05233 381666015474 NAD(P) binding site [chemical binding]; other site 381666015475 active site 381666015476 N-acetyltransferase; Region: Acetyltransf_2; cl00949 381666015477 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 381666015478 ligand binding site [chemical binding]; other site 381666015479 flexible hinge region; other site 381666015480 Helix-turn-helix domains; Region: HTH; cl00088 381666015481 Protein of unknown function (DUF962); Region: DUF962; cl01879 381666015482 sensor protein QseC; Provisional; Region: PRK10337 381666015483 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 381666015484 ATP binding site [chemical binding]; other site 381666015485 Mg2+ binding site [ion binding]; other site 381666015486 G-X-G motif; other site 381666015487 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666015488 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666015489 active site 381666015490 phosphorylation site [posttranslational modification] 381666015491 intermolecular recognition site; other site 381666015492 dimerization interface [polypeptide binding]; other site 381666015493 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 381666015494 DNA binding site [nucleotide binding] 381666015495 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 381666015496 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 381666015497 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 381666015498 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; cl12031 381666015499 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 381666015500 putative substrate binding pocket [chemical binding]; other site 381666015501 trimer interface [polypeptide binding]; other site 381666015502 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 381666015503 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666015504 dimer interface [polypeptide binding]; other site 381666015505 putative CheW interface [polypeptide binding]; other site 381666015506 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 381666015507 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 381666015508 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666015509 metal binding site [ion binding]; metal-binding site 381666015510 active site 381666015511 I-site; other site 381666015512 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666015513 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666015514 active site 381666015515 phosphorylation site [posttranslational modification] 381666015516 intermolecular recognition site; other site 381666015517 dimerization interface [polypeptide binding]; other site 381666015518 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 381666015519 DNA binding site [nucleotide binding] 381666015520 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 381666015521 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 381666015522 putative active site [active] 381666015523 catalytic site [active] 381666015524 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 381666015525 putative active site [active] 381666015526 catalytic site [active] 381666015527 Helix-turn-helix domains; Region: HTH; cl00088 381666015528 WHG domain; Region: WHG; pfam13305 381666015529 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 381666015530 active site 381666015531 DNA binding site [nucleotide binding] 381666015532 Int/Topo IB signature motif; other site 381666015533 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 381666015534 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 381666015535 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 381666015536 RES domain; Region: RES; cl02411 381666015537 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666015538 AMP-binding enzyme; Region: AMP-binding; cl15778 381666015539 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666015540 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 381666015541 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 381666015542 DEAD_2; Region: DEAD_2; pfam06733 381666015543 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666015544 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 381666015545 catalytic residues [active] 381666015546 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666015547 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 381666015548 putative metal binding site [ion binding]; other site 381666015549 Helix-turn-helix domains; Region: HTH; cl00088 381666015550 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666015551 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 381666015552 putative dimerization interface [polypeptide binding]; other site 381666015553 Cupin domain; Region: Cupin_2; cl09118 381666015554 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666015555 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 381666015556 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666015557 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666015558 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 381666015559 Fusaric acid resistance protein family; Region: FUSC; pfam04632 381666015560 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 381666015561 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666015562 Helix-turn-helix domains; Region: HTH; cl00088 381666015563 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 381666015564 putative dimerization interface [polypeptide binding]; other site 381666015565 Predicted acetyltransferase [General function prediction only]; Region: COG3153 381666015566 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666015567 Coenzyme A binding pocket [chemical binding]; other site 381666015568 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 381666015569 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 381666015570 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 381666015571 FMN-binding pocket [chemical binding]; other site 381666015572 flavin binding motif; other site 381666015573 phosphate binding motif [ion binding]; other site 381666015574 beta-alpha-beta structure motif; other site 381666015575 NAD binding pocket [chemical binding]; other site 381666015576 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 381666015577 catalytic loop [active] 381666015578 iron binding site [ion binding]; other site 381666015579 NMT1-like family; Region: NMT1_2; cl15260 381666015580 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666015581 Helix-turn-helix domains; Region: HTH; cl00088 381666015582 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666015583 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 381666015584 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 381666015585 active site 381666015586 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 381666015587 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666015588 Walker A/P-loop; other site 381666015589 ATP binding site [chemical binding]; other site 381666015590 Q-loop/lid; other site 381666015591 ABC transporter signature motif; other site 381666015592 Walker B; other site 381666015593 D-loop; other site 381666015594 H-loop/switch region; other site 381666015595 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 381666015596 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666015597 Walker A/P-loop; other site 381666015598 ATP binding site [chemical binding]; other site 381666015599 Q-loop/lid; other site 381666015600 ABC transporter signature motif; other site 381666015601 Walker B; other site 381666015602 D-loop; other site 381666015603 H-loop/switch region; other site 381666015604 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666015605 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 381666015606 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 381666015607 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 381666015608 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 381666015609 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 381666015610 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666015611 DNA-binding site [nucleotide binding]; DNA binding site 381666015612 UTRA domain; Region: UTRA; cl01230 381666015613 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 381666015614 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666015615 active site 381666015616 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 381666015617 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666015618 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 381666015619 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 381666015620 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 381666015621 dimer interface [polypeptide binding]; other site 381666015622 conserved gate region; other site 381666015623 putative PBP binding loops; other site 381666015624 ABC-ATPase subunit interface; other site 381666015625 NMT1-like family; Region: NMT1_2; cl15260 381666015626 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 381666015627 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 381666015628 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 381666015629 Walker A/P-loop; other site 381666015630 ATP binding site [chemical binding]; other site 381666015631 Q-loop/lid; other site 381666015632 ABC transporter signature motif; other site 381666015633 Walker B; other site 381666015634 D-loop; other site 381666015635 H-loop/switch region; other site 381666015636 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 381666015637 classical (c) SDRs; Region: SDR_c; cd05233 381666015638 NAD(P) binding site [chemical binding]; other site 381666015639 active site 381666015640 LysR family transcriptional regulator; Provisional; Region: PRK14997 381666015641 Helix-turn-helix domains; Region: HTH; cl00088 381666015642 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 381666015643 putative effector binding pocket; other site 381666015644 dimerization interface [polypeptide binding]; other site 381666015645 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666015646 Helix-turn-helix domains; Region: HTH; cl00088 381666015647 AsnC family; Region: AsnC_trans_reg; pfam01037 381666015648 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 381666015649 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 381666015650 dimer interface [polypeptide binding]; other site 381666015651 TPP-binding site [chemical binding]; other site 381666015652 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 381666015653 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666015654 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 381666015655 Domain of unknown function (DUF305); Region: DUF305; cl15795 381666015656 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 381666015657 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 381666015658 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 381666015659 Chromate transporter; Region: Chromate_transp; pfam02417 381666015660 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 381666015661 Chromate transporter; Region: Chromate_transp; pfam02417 381666015662 indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family; Region: indol_phenyl_DC; TIGR03394 381666015663 Sec24-related protein; Provisional; Region: PTZ00395 381666015664 The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing...; Region: bacteriophage_lambda_lysozyme; cd00736 381666015665 N-acetyl-D-glucosamine binding site [chemical binding]; other site 381666015666 catalytic residue [active] 381666015667 Domain of unknown function DUF87; Region: DUF87; pfam01935 381666015668 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 381666015669 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666015670 active site 381666015671 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 381666015672 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 381666015673 putative active site [active] 381666015674 putative substrate binding site [chemical binding]; other site 381666015675 ATP binding site [chemical binding]; other site 381666015676 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666015677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666015678 NAD(P) binding site [chemical binding]; other site 381666015679 active site 381666015680 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666015681 AMP-binding enzyme; Region: AMP-binding; cl15778 381666015682 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666015683 Protein of unknown function, DUF485; Region: DUF485; cl01231 381666015684 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 381666015685 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 381666015686 Na binding site [ion binding]; other site 381666015687 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 381666015688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666015689 Helix-turn-helix domains; Region: HTH; cl00088 381666015690 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 381666015691 dimerization interface [polypeptide binding]; other site 381666015692 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 381666015693 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 381666015694 NAD(P) binding site [chemical binding]; other site 381666015695 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 381666015696 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666015697 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 381666015698 DNA binding residues [nucleotide binding] 381666015699 dimerization interface [polypeptide binding]; other site 381666015700 short chain dehydrogenase; Provisional; Region: PRK09291 381666015701 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 381666015702 NADP binding site [chemical binding]; other site 381666015703 active site 381666015704 steroid binding site; other site 381666015705 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666015706 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 381666015707 substrate binding site [chemical binding]; other site 381666015708 oxyanion hole (OAH) forming residues; other site 381666015709 trimer interface [polypeptide binding]; other site 381666015710 chaperone protein HchA; Provisional; Region: PRK04155 381666015711 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 381666015712 conserved cys residue [active] 381666015713 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 381666015714 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 381666015715 Family description; Region: VCBS; pfam13517 381666015716 Family description; Region: VCBS; pfam13517 381666015717 Family description; Region: VCBS; pfam13517 381666015718 Family description; Region: VCBS; pfam13517 381666015719 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 381666015720 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 381666015721 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 381666015722 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 381666015723 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 381666015724 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 381666015725 Na binding site [ion binding]; other site 381666015726 Protein of unknown function, DUF485; Region: DUF485; cl01231 381666015727 AMP-binding enzyme; Region: AMP-binding; cl15778 381666015728 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 381666015729 Phenylacetic acid degradation proteins PaaZ (Escherichia coli) and PaaN (Pseudomonas putida)-like; Region: ALDH_PAD-PaaZ; cd07127 381666015730 NADP binding site [chemical binding]; other site 381666015731 catalytic residues [active] 381666015732 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 381666015733 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 381666015734 FAD binding pocket [chemical binding]; other site 381666015735 FAD binding motif [chemical binding]; other site 381666015736 phosphate binding motif [ion binding]; other site 381666015737 beta-alpha-beta structure motif; other site 381666015738 NAD(p) ribose binding residues [chemical binding]; other site 381666015739 NAD binding pocket [chemical binding]; other site 381666015740 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 381666015741 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 381666015742 catalytic loop [active] 381666015743 iron binding site [ion binding]; other site 381666015744 Domain of unknown function DUF59; Region: DUF59; cl00941 381666015745 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 381666015746 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 381666015747 Phenylacetic acid degradation B; Region: PaaB; cl01371 381666015748 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 381666015749 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 381666015750 PaaX-like protein; Region: PaaX; pfam07848 381666015751 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 381666015752 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 381666015753 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 381666015754 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 381666015755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666015756 catalytic residue [active] 381666015757 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 381666015758 Helix-turn-helix domains; Region: HTH; cl00088 381666015759 AsnC family; Region: AsnC_trans_reg; pfam01037 381666015760 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666015761 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666015762 active site 381666015763 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 381666015764 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 381666015765 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 381666015766 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 381666015767 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 381666015768 dimer interface [polypeptide binding]; other site 381666015769 active site 381666015770 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666015771 NMT1-like family; Region: NMT1_2; cl15260 381666015772 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666015773 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666015774 active site 381666015775 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666015776 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666015777 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666015778 AMP-binding enzyme; Region: AMP-binding; cl15778 381666015779 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666015780 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666015781 Helix-turn-helix domains; Region: HTH; cl00088 381666015782 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 381666015783 putative dimerization interface [polypeptide binding]; other site 381666015784 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 381666015785 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666015786 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666015787 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 381666015788 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666015789 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666015790 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 381666015791 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666015792 cyclase homology domain; Region: CHD; cd07302 381666015793 nucleotidyl binding site; other site 381666015794 metal binding site [ion binding]; metal-binding site 381666015795 dimer interface [polypeptide binding]; other site 381666015796 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 381666015797 phosphopeptide binding site; other site 381666015798 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 381666015799 Clp amino terminal domain; Region: Clp_N; pfam02861 381666015800 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 381666015801 Walker A motif; other site 381666015802 ATP binding site [chemical binding]; other site 381666015803 Walker B motif; other site 381666015804 arginine finger; other site 381666015805 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 381666015806 Walker A motif; other site 381666015807 ATP binding site [chemical binding]; other site 381666015808 Walker B motif; other site 381666015809 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 381666015810 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 381666015811 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 381666015812 putative molybdopterin cofactor binding site [chemical binding]; other site 381666015813 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 381666015814 putative molybdopterin cofactor binding site; other site 381666015815 hypothetical protein; Provisional; Region: PRK08185 381666015816 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 381666015817 intersubunit interface [polypeptide binding]; other site 381666015818 active site 381666015819 zinc binding site [ion binding]; other site 381666015820 Na+ binding site [ion binding]; other site 381666015821 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 381666015822 Phosphoglycerate kinase; Region: PGK; pfam00162 381666015823 substrate binding site [chemical binding]; other site 381666015824 hinge regions; other site 381666015825 ADP binding site [chemical binding]; other site 381666015826 catalytic site [active] 381666015827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666015828 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 381666015829 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 381666015830 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 381666015831 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 381666015832 motif II; other site 381666015833 transketolase; Reviewed; Region: PRK12753 381666015834 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 381666015835 TPP-binding site [chemical binding]; other site 381666015836 dimer interface [polypeptide binding]; other site 381666015837 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 381666015838 PYR/PP interface [polypeptide binding]; other site 381666015839 dimer interface [polypeptide binding]; other site 381666015840 TPP binding site [chemical binding]; other site 381666015841 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 381666015842 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666015843 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 381666015844 AMP binding site [chemical binding]; other site 381666015845 metal binding site [ion binding]; metal-binding site 381666015846 active site 381666015847 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 381666015848 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 381666015849 substrate binding site [chemical binding]; other site 381666015850 hexamer interface [polypeptide binding]; other site 381666015851 metal binding site [ion binding]; metal-binding site 381666015852 haloacid dehalogenase-like hydrolase family protein; Region: PLN02779 381666015853 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 381666015854 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 381666015855 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 381666015856 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 381666015857 Walker A motif; other site 381666015858 ATP binding site [chemical binding]; other site 381666015859 Walker B motif; other site 381666015860 arginine finger; other site 381666015861 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 381666015862 multimerization interface [polypeptide binding]; other site 381666015863 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 381666015864 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 381666015865 homodimer interface [polypeptide binding]; other site 381666015866 active site 381666015867 heterodimer interface [polypeptide binding]; other site 381666015868 catalytic residue [active] 381666015869 metal binding site [ion binding]; metal-binding site 381666015870 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666015871 Helix-turn-helix domains; Region: HTH; cl00088 381666015872 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 381666015873 putative dimerization interface [polypeptide binding]; other site 381666015874 AMP-binding domain protein; Validated; Region: PRK07529 381666015875 AMP-binding enzyme; Region: AMP-binding; cl15778 381666015876 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 381666015877 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 381666015878 dimer interface [polypeptide binding]; other site 381666015879 PYR/PP interface [polypeptide binding]; other site 381666015880 TPP binding site [chemical binding]; other site 381666015881 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 381666015882 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 381666015883 TPP-binding site [chemical binding]; other site 381666015884 dimer interface [polypeptide binding]; other site 381666015885 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666015886 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 381666015887 ligand binding site [chemical binding]; other site 381666015888 flexible hinge region; other site 381666015889 Helix-turn-helix domains; Region: HTH; cl00088 381666015890 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 381666015891 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666015892 putative substrate translocation pore; other site 381666015893 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 381666015894 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 381666015895 Cupin domain; Region: Cupin_2; cl09118 381666015896 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666015897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666015898 NAD(P) binding site [chemical binding]; other site 381666015899 active site 381666015900 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666015901 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 381666015902 Isochorismatase family; Region: Isochorismatase; pfam00857 381666015903 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 381666015904 catalytic triad [active] 381666015905 conserved cis-peptide bond; other site 381666015906 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; cl12031 381666015907 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666015908 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; cl12031 381666015909 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 381666015910 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666015911 DNA-binding site [nucleotide binding]; DNA binding site 381666015912 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 381666015913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666015914 homodimer interface [polypeptide binding]; other site 381666015915 catalytic residue [active] 381666015916 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 381666015917 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666015918 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 381666015919 N-terminal domain interface [polypeptide binding]; other site 381666015920 substrate binding pocket (H-site) [chemical binding]; other site 381666015921 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 381666015922 Amidase; Region: Amidase; cl11426 381666015923 LysR family transcriptional regulator; Provisional; Region: PRK14997 381666015924 Helix-turn-helix domains; Region: HTH; cl00088 381666015925 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 381666015926 dimerization interface [polypeptide binding]; other site 381666015927 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 381666015928 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 381666015929 putative FMN binding site [chemical binding]; other site 381666015930 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 381666015931 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 381666015932 active site 381666015933 dimer interface [polypeptide binding]; other site 381666015934 metal binding site [ion binding]; metal-binding site 381666015935 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 381666015936 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 381666015937 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 381666015938 Zn binding site [ion binding]; other site 381666015939 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 381666015940 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666015941 Zn binding site [ion binding]; other site 381666015942 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 381666015943 ligand binding site [chemical binding]; other site 381666015944 flexible hinge region; other site 381666015945 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 381666015946 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666015947 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 381666015948 DNA binding site [nucleotide binding] 381666015949 TolB amino-terminal domain; Region: TolB_N; cl00639 381666015950 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 381666015951 TPR motif; other site 381666015952 TPR repeat; Region: TPR_11; pfam13414 381666015953 binding surface 381666015954 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 381666015955 binding surface 381666015956 TPR motif; other site 381666015957 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 381666015958 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666015959 NAD(P) binding site [chemical binding]; other site 381666015960 active site 381666015961 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666015962 Helix-turn-helix domains; Region: HTH; cl00088 381666015963 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 381666015964 putative effector binding pocket; other site 381666015965 dimerization interface [polypeptide binding]; other site 381666015966 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 381666015967 catalytic triad [active] 381666015968 conserved cis-peptide bond; other site 381666015969 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666015970 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; cl12031 381666015971 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 381666015972 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 381666015973 tetramer interface [polypeptide binding]; other site 381666015974 heme binding pocket [chemical binding]; other site 381666015975 NADPH binding site [chemical binding]; other site 381666015976 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 381666015977 Ligand Binding Site [chemical binding]; other site 381666015978 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 381666015979 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 381666015980 Ligand Binding Site [chemical binding]; other site 381666015981 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 381666015982 Ligand Binding Site [chemical binding]; other site 381666015983 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 381666015984 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 381666015985 putative NAD(P) binding site [chemical binding]; other site 381666015986 putative substrate binding site [chemical binding]; other site 381666015987 catalytic Zn binding site [ion binding]; other site 381666015988 structural Zn binding site [ion binding]; other site 381666015989 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666015990 active site 381666015991 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666015992 Helix-turn-helix domains; Region: HTH; cl00088 381666015993 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 381666015994 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666015995 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 381666015996 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666015997 CoA-ligase; Region: Ligase_CoA; cl02894 381666015998 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666015999 enoyl-CoA hydratase; Provisional; Region: PRK06688 381666016000 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 381666016001 substrate binding site [chemical binding]; other site 381666016002 oxyanion hole (OAH) forming residues; other site 381666016003 trimer interface [polypeptide binding]; other site 381666016004 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666016005 NMT1-like family; Region: NMT1_2; cl15260 381666016006 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 381666016007 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666016008 classical (c) SDRs; Region: SDR_c; cd05233 381666016009 NAD(P) binding site [chemical binding]; other site 381666016010 active site 381666016011 Uncharacterized conserved protein [Function unknown]; Region: COG2128 381666016012 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666016013 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 381666016014 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666016015 NMT1-like family; Region: NMT1_2; cl15260 381666016016 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 381666016017 Helix-turn-helix domains; Region: HTH; cl00088 381666016018 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 381666016019 putative dimerization interface [polypeptide binding]; other site 381666016020 putative substrate binding pocket [chemical binding]; other site 381666016021 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666016022 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; cl12031 381666016023 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666016024 NMT1-like family; Region: NMT1_2; cl15260 381666016025 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666016026 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666016027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666016028 NMT1-like family; Region: NMT1_2; cl15260 381666016029 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 381666016030 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 381666016031 [4Fe-4S] binding site [ion binding]; other site 381666016032 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 381666016033 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 381666016034 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 381666016035 molybdopterin cofactor binding site; other site 381666016036 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 381666016037 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 381666016038 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 381666016039 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 381666016040 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 381666016041 Phospholipid methyltransferase; Region: PEMT; cl00763 381666016042 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 381666016043 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666016044 active site 381666016045 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 381666016046 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 381666016047 dimer interface [polypeptide binding]; other site 381666016048 phosphorylation site [posttranslational modification] 381666016049 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 381666016050 ATP binding site [chemical binding]; other site 381666016051 Mg2+ binding site [ion binding]; other site 381666016052 G-X-G motif; other site 381666016053 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 381666016054 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666016055 active site 381666016056 phosphorylation site [posttranslational modification] 381666016057 intermolecular recognition site; other site 381666016058 dimerization interface [polypeptide binding]; other site 381666016059 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 381666016060 Walker A motif; other site 381666016061 ATP binding site [chemical binding]; other site 381666016062 Walker B motif; other site 381666016063 arginine finger; other site 381666016064 Helix-turn-helix domains; Region: HTH; cl00088 381666016065 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 381666016066 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666016067 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 381666016068 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 381666016069 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 381666016070 Fusaric acid resistance protein family; Region: FUSC; pfam04632 381666016071 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 381666016072 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 381666016073 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 381666016074 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666016075 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666016076 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 381666016077 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 381666016078 FeS/SAM binding site; other site 381666016079 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 381666016080 Helix-turn-helix domains; Region: HTH; cl00088 381666016081 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 381666016082 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666016083 DNA-binding site [nucleotide binding]; DNA binding site 381666016084 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 381666016085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666016086 homodimer interface [polypeptide binding]; other site 381666016087 catalytic residue [active] 381666016088 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 381666016089 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 381666016090 dimer interface [polypeptide binding]; other site 381666016091 putative functional site; other site 381666016092 putative MPT binding site; other site 381666016093 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 381666016094 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 381666016095 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 381666016096 putative molybdopterin cofactor binding site [chemical binding]; other site 381666016097 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 381666016098 putative molybdopterin cofactor binding site; other site 381666016099 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666016100 Helix-turn-helix domains; Region: HTH; cl00088 381666016101 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 381666016102 dimerization interface [polypeptide binding]; other site 381666016103 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 381666016104 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 381666016105 metal binding site [ion binding]; metal-binding site 381666016106 putative dimer interface [polypeptide binding]; other site 381666016107 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666016108 NMT1-like family; Region: NMT1_2; cl15260 381666016109 Dienelactone hydrolase family; Region: DLH; pfam01738 381666016110 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666016111 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 381666016112 dimer interface [polypeptide binding]; other site 381666016113 conserved gate region; other site 381666016114 ABC-ATPase subunit interface; other site 381666016115 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 381666016116 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 381666016117 Walker A/P-loop; other site 381666016118 ATP binding site [chemical binding]; other site 381666016119 Q-loop/lid; other site 381666016120 ABC transporter signature motif; other site 381666016121 Walker B; other site 381666016122 D-loop; other site 381666016123 H-loop/switch region; other site 381666016124 NMT1-like family; Region: NMT1_2; cl15260 381666016125 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 381666016126 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 381666016127 active site 381666016128 non-prolyl cis peptide bond; other site 381666016129 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 381666016130 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 381666016131 Flavin binding site [chemical binding]; other site 381666016132 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 381666016133 Chromate transporter; Region: Chromate_transp; pfam02417 381666016134 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 381666016135 Chromate transporter; Region: Chromate_transp; pfam02417 381666016136 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 381666016137 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 381666016138 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666016139 putative substrate translocation pore; other site 381666016140 Fic/DOC family; Region: Fic; cl00960 381666016141 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 381666016142 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 381666016143 catalytic residues [active] 381666016144 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 381666016145 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 381666016146 N-terminal plug; other site 381666016147 ligand-binding site [chemical binding]; other site 381666016148 xanthine permease; Region: pbuX; TIGR03173 381666016149 Peptidase family M23; Region: Peptidase_M23; pfam01551 381666016150 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 381666016151 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666016152 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 381666016153 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 381666016154 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 381666016155 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 381666016156 Walker A/P-loop; other site 381666016157 ATP binding site [chemical binding]; other site 381666016158 Q-loop/lid; other site 381666016159 ABC transporter signature motif; other site 381666016160 Walker B; other site 381666016161 D-loop; other site 381666016162 H-loop/switch region; other site 381666016163 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 381666016164 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 381666016165 TM-ABC transporter signature motif; other site 381666016166 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 381666016167 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 381666016168 putative ligand binding site [chemical binding]; other site 381666016169 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 381666016170 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 381666016171 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 381666016172 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 381666016173 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 381666016174 active site 381666016175 dimer interface [polypeptide binding]; other site 381666016176 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 381666016177 dimer interface [polypeptide binding]; other site 381666016178 active site 381666016179 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 381666016180 putative substrate binding site [chemical binding]; other site 381666016181 putative ATP binding site [chemical binding]; other site 381666016182 Predicted transcriptional regulator [Transcription]; Region: COG4190 381666016183 Helix-turn-helix domains; Region: HTH; cl00088 381666016184 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666016185 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666016186 putative substrate translocation pore; other site 381666016187 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 381666016188 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 381666016189 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 381666016190 active site 381666016191 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666016192 Helix-turn-helix domains; Region: HTH; cl00088 381666016193 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 381666016194 dimerization interface [polypeptide binding]; other site 381666016195 substrate binding pocket [chemical binding]; other site 381666016196 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666016197 NMT1-like family; Region: NMT1_2; cl15260 381666016198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666016199 NAD(P) binding site [chemical binding]; other site 381666016200 active site 381666016201 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 381666016202 Helix-turn-helix domains; Region: HTH; cl00088 381666016203 Helix-turn-helix domains; Region: HTH; cl00088 381666016204 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 381666016205 putative ABC transporter; Region: ycf24; CHL00085 381666016206 FeS assembly ATPase SufC; Region: sufC; TIGR01978 381666016207 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 381666016208 Walker A/P-loop; other site 381666016209 ATP binding site [chemical binding]; other site 381666016210 Q-loop/lid; other site 381666016211 ABC transporter signature motif; other site 381666016212 Walker B; other site 381666016213 D-loop; other site 381666016214 H-loop/switch region; other site 381666016215 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 381666016216 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 381666016217 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 381666016218 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 381666016219 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666016220 catalytic residue [active] 381666016221 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 381666016222 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 381666016223 trimerization site [polypeptide binding]; other site 381666016224 active site 381666016225 Domain of unknown function DUF59; Region: DUF59; cl00941 381666016226 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 381666016227 [2Fe-2S] cluster binding site [ion binding]; other site 381666016228 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 381666016229 Double zinc ribbon; Region: DZR; pfam12773 381666016230 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 381666016231 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 381666016232 cyclase homology domain; Region: CHD; cd07302 381666016233 nucleotidyl binding site; other site 381666016234 metal binding site [ion binding]; metal-binding site 381666016235 dimer interface [polypeptide binding]; other site 381666016236 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666016237 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 381666016238 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 381666016239 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 381666016240 active site 381666016241 nucleophile elbow; other site 381666016242 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666016243 metal binding site [ion binding]; metal-binding site 381666016244 active site 381666016245 I-site; other site 381666016246 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666016247 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666016248 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 381666016249 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666016250 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666016251 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666016252 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 381666016253 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666016254 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 381666016255 Helix-turn-helix domains; Region: HTH; cl00088 381666016256 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 381666016257 dimerization interface [polypeptide binding]; other site 381666016258 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666016259 Helix-turn-helix domains; Region: HTH; cl00088 381666016260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666016261 NMT1-like family; Region: NMT1_2; cl15260 381666016262 Sulfatase; Region: Sulfatase; cl10460 381666016263 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 381666016264 Protein required for attachment to host cells; Region: Host_attach; cl02398 381666016265 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666016266 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666016267 DNA-binding site [nucleotide binding]; DNA binding site 381666016268 UTRA domain; Region: UTRA; cl01230 381666016269 choline dehydrogenase; Validated; Region: PRK02106 381666016270 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666016271 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 381666016272 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666016273 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 381666016274 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 381666016275 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666016276 NAD binding site [chemical binding]; other site 381666016277 catalytic residues [active] 381666016278 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 381666016279 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 381666016280 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666016281 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 381666016282 tetramerization interface [polypeptide binding]; other site 381666016283 NAD(P) binding site [chemical binding]; other site 381666016284 catalytic residues [active] 381666016285 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 381666016286 CRP/FNR family transcriptional regulator; Provisional; Region: PRK13918 381666016287 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 381666016288 ligand binding site [chemical binding]; other site 381666016289 flexible hinge region; other site 381666016290 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 381666016291 putative switch regulator; other site 381666016292 non-specific DNA interactions [nucleotide binding]; other site 381666016293 DNA binding site [nucleotide binding] 381666016294 sequence specific DNA binding site [nucleotide binding]; other site 381666016295 putative cAMP binding site [chemical binding]; other site 381666016296 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 381666016297 PAS domain; Region: PAS_9; pfam13426 381666016298 putative active site [active] 381666016299 heme pocket [chemical binding]; other site 381666016300 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 381666016301 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 381666016302 putative active site [active] 381666016303 heme pocket [chemical binding]; other site 381666016304 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 381666016305 dimer interface [polypeptide binding]; other site 381666016306 phosphorylation site [posttranslational modification] 381666016307 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 381666016308 ATP binding site [chemical binding]; other site 381666016309 Mg2+ binding site [ion binding]; other site 381666016310 G-X-G motif; other site 381666016311 Response regulator receiver domain; Region: Response_reg; pfam00072 381666016312 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666016313 active site 381666016314 phosphorylation site [posttranslational modification] 381666016315 intermolecular recognition site; other site 381666016316 dimerization interface [polypeptide binding]; other site 381666016317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666016318 NMT1-like family; Region: NMT1_2; cl15260 381666016319 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666016320 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666016321 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666016322 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666016323 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 381666016324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666016325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666016326 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 381666016327 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 381666016328 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666016329 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 381666016330 Erythromycin esterase homolog [General function prediction only]; Region: COG2312 381666016331 Erythromycin esterase; Region: Erythro_esteras; pfam05139 381666016332 BON domain; Region: BON; cl02771 381666016333 BON domain; Region: BON; cl02771 381666016334 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 381666016335 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 381666016336 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 381666016337 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 381666016338 active site 381666016339 homodimer interface [polypeptide binding]; other site 381666016340 catalytic site [active] 381666016341 acceptor binding site [chemical binding]; other site 381666016342 trehalose synthase; Region: treS_nterm; TIGR02456 381666016343 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 381666016344 active site 381666016345 catalytic site [active] 381666016346 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 381666016347 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 381666016348 glycogen branching enzyme; Provisional; Region: PRK05402 381666016349 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 381666016350 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 381666016351 active site 381666016352 catalytic site [active] 381666016353 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 381666016354 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 381666016355 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 381666016356 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 381666016357 active site 381666016358 catalytic site [active] 381666016359 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 381666016360 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 381666016361 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 381666016362 homodimer interface [polypeptide binding]; other site 381666016363 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 381666016364 active site pocket [active] 381666016365 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 381666016366 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 381666016367 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 381666016368 catalytic site [active] 381666016369 active site 381666016370 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 381666016371 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 381666016372 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 381666016373 active site 381666016374 catalytic site [active] 381666016375 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 381666016376 BON domain; Region: BON; cl02771 381666016377 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 381666016378 putative catalytic site [active] 381666016379 putative metal binding site [ion binding]; other site 381666016380 putative phosphate binding site [ion binding]; other site 381666016381 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 381666016382 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 381666016383 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 381666016384 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 381666016385 excinuclease ABC, A subunit; Region: uvra; TIGR00630 381666016386 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666016387 Walker A/P-loop; other site 381666016388 ATP binding site [chemical binding]; other site 381666016389 Q-loop/lid; other site 381666016390 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 381666016391 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 381666016392 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 381666016393 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 381666016394 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 381666016395 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 381666016396 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666016397 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666016398 Helix-turn-helix domains; Region: HTH; cl00088 381666016399 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 381666016400 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 381666016401 dimerization interface [polypeptide binding]; other site 381666016402 active site 381666016403 Helix-turn-helix domains; Region: HTH; cl00088 381666016404 AsnC family; Region: AsnC_trans_reg; pfam01037 381666016405 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 381666016406 Helix-turn-helix domains; Region: HTH; cl00088 381666016407 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 381666016408 putative dimerization interface [polypeptide binding]; other site 381666016409 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 381666016410 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 381666016411 THF binding site; other site 381666016412 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 381666016413 substrate binding site [chemical binding]; other site 381666016414 THF binding site; other site 381666016415 zinc-binding site [ion binding]; other site 381666016416 Uncharacterized conserved protein [Function unknown]; Region: COG5361 381666016417 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 381666016418 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 381666016419 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 381666016420 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; cl12031 381666016421 Muconolactone delta-isomerase; Region: MIase; cl01992 381666016422 YCII-related domain; Region: YCII; cl00999 381666016423 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 381666016424 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 381666016425 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 381666016426 putative lipoprotein/autotransporter domain-containing protein; Provisional; Region: PRK14849 381666016427 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666016428 metal binding site [ion binding]; metal-binding site 381666016429 active site 381666016430 I-site; other site 381666016431 cytosine deaminase; Validated; Region: PRK07572 381666016432 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 381666016433 active site 381666016434 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 381666016435 Helix-turn-helix domains; Region: HTH; cl00088 381666016436 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 381666016437 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 381666016438 active site 381666016439 Protein of unknown function (DUF1688); Region: DUF1688; pfam07958 381666016440 hypothetical protein; Validated; Region: PRK07198 381666016441 GTP cyclohydrolase N terminal; Region: GTP_CH_N; pfam12471 381666016442 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; cl00522 381666016443 dimerization interface [polypeptide binding]; other site 381666016444 active site 381666016445 Transcriptional regulators [Transcription]; Region: PurR; COG1609 381666016446 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 381666016447 DNA binding site [nucleotide binding] 381666016448 domain linker motif; other site 381666016449 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 381666016450 putative ligand binding site [chemical binding]; other site 381666016451 putative dimerization interface [polypeptide binding]; other site 381666016452 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein; Region: PhnS; TIGR03227 381666016453 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 381666016454 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 381666016455 dimer interface [polypeptide binding]; other site 381666016456 conserved gate region; other site 381666016457 putative PBP binding loops; other site 381666016458 ABC-ATPase subunit interface; other site 381666016459 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 381666016460 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 381666016461 dimer interface [polypeptide binding]; other site 381666016462 conserved gate region; other site 381666016463 putative PBP binding loops; other site 381666016464 ABC-ATPase subunit interface; other site 381666016465 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 381666016466 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666016467 Walker A/P-loop; other site 381666016468 ATP binding site [chemical binding]; other site 381666016469 Q-loop/lid; other site 381666016470 ABC transporter signature motif; other site 381666016471 Walker B; other site 381666016472 D-loop; other site 381666016473 H-loop/switch region; other site 381666016474 TOBE domain; Region: TOBE_2; cl01440 381666016475 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 381666016476 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 381666016477 active site 381666016478 metal binding site [ion binding]; metal-binding site 381666016479 hexamer interface [polypeptide binding]; other site 381666016480 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666016481 FAD binding domain; Region: FAD_binding_4; pfam01565 381666016482 Berberine and berberine like; Region: BBE; pfam08031 381666016483 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 381666016484 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 381666016485 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666016486 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 381666016487 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 381666016488 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 381666016489 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 381666016490 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 381666016491 Walker A/P-loop; other site 381666016492 ATP binding site [chemical binding]; other site 381666016493 Q-loop/lid; other site 381666016494 ABC transporter signature motif; other site 381666016495 Walker B; other site 381666016496 D-loop; other site 381666016497 H-loop/switch region; other site 381666016498 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 381666016499 metal ion-dependent adhesion site (MIDAS); other site 381666016500 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 381666016501 MoxR-like ATPases [General function prediction only]; Region: COG0714 381666016502 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 381666016503 Walker A motif; other site 381666016504 ATP binding site [chemical binding]; other site 381666016505 Walker B motif; other site 381666016506 arginine finger; other site 381666016507 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 381666016508 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 381666016509 hypothetical protein; Provisional; Region: PRK13685 381666016510 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 381666016511 metal ion-dependent adhesion site (MIDAS); other site 381666016512 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666016513 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666016514 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 381666016515 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666016516 NMT1-like family; Region: NMT1_2; cl15260 381666016517 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666016518 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666016519 multidrug resistance protein MdtN; Provisional; Region: PRK10476 381666016520 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666016521 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666016522 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 381666016523 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 381666016524 dimer interface [polypeptide binding]; other site 381666016525 phosphorylation site [posttranslational modification] 381666016526 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 381666016527 ATP binding site [chemical binding]; other site 381666016528 Mg2+ binding site [ion binding]; other site 381666016529 G-X-G motif; other site 381666016530 Response regulator receiver domain; Region: Response_reg; pfam00072 381666016531 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666016532 active site 381666016533 phosphorylation site [posttranslational modification] 381666016534 intermolecular recognition site; other site 381666016535 dimerization interface [polypeptide binding]; other site 381666016536 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 381666016537 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666016538 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666016539 active site 381666016540 phosphorylation site [posttranslational modification] 381666016541 intermolecular recognition site; other site 381666016542 dimerization interface [polypeptide binding]; other site 381666016543 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 381666016544 DNA binding residues [nucleotide binding] 381666016545 dimerization interface [polypeptide binding]; other site 381666016546 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 381666016547 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 381666016548 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 381666016549 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 381666016550 NAD binding site [chemical binding]; other site 381666016551 homotetramer interface [polypeptide binding]; other site 381666016552 homodimer interface [polypeptide binding]; other site 381666016553 substrate binding site [chemical binding]; other site 381666016554 active site 381666016555 acetate kinase; Region: ackA; TIGR00016 381666016556 Acetokinase family; Region: Acetate_kinase; cl01029 381666016557 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 381666016558 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 381666016559 NADH dehydrogenase subunit G; Validated; Region: PRK07860 381666016560 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666016561 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 381666016562 substrate binding pocket [chemical binding]; other site 381666016563 membrane-bound complex binding site; other site 381666016564 hinge residues; other site 381666016565 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 381666016566 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 381666016567 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 381666016568 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 381666016569 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 381666016570 inhibitor-cofactor binding pocket; inhibition site 381666016571 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666016572 catalytic residue [active] 381666016573 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 381666016574 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 381666016575 Ligand binding site; other site 381666016576 Putative Catalytic site; other site 381666016577 DXD motif; other site 381666016578 putative formyltransferase; Provisional; Region: PRK06988 381666016579 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 381666016580 active site 381666016581 substrate binding site [chemical binding]; other site 381666016582 cosubstrate binding site; other site 381666016583 catalytic site [active] 381666016584 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 381666016585 active site 381666016586 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 381666016587 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 381666016588 NAD binding site [chemical binding]; other site 381666016589 substrate binding site [chemical binding]; other site 381666016590 active site 381666016591 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 381666016592 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 381666016593 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 381666016594 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 381666016595 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 381666016596 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 381666016597 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 381666016598 dimer interface [polypeptide binding]; other site 381666016599 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 381666016600 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 381666016601 dimer interface [polypeptide binding]; other site 381666016602 phosphorylation site [posttranslational modification] 381666016603 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 381666016604 ATP binding site [chemical binding]; other site 381666016605 Mg2+ binding site [ion binding]; other site 381666016606 G-X-G motif; other site 381666016607 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 381666016608 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666016609 active site 381666016610 phosphorylation site [posttranslational modification] 381666016611 intermolecular recognition site; other site 381666016612 dimerization interface [polypeptide binding]; other site 381666016613 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 381666016614 DNA binding site [nucleotide binding] 381666016615 H-NS histone family; Region: Histone_HNS; pfam00816 381666016616 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 381666016617 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 381666016618 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07819 381666016619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666016620 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 381666016621 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666016622 Helix-turn-helix domains; Region: HTH; cl00088 381666016623 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 381666016624 putative dimerization interface [polypeptide binding]; other site 381666016625 HipA N-terminal domain; Region: Couple_hipA; cl11853 381666016626 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 381666016627 HipA-like N-terminal domain; Region: HipA_N; pfam07805 381666016628 HipA-like C-terminal domain; Region: HipA_C; pfam07804 381666016629 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 381666016630 non-specific DNA binding site [nucleotide binding]; other site 381666016631 salt bridge; other site 381666016632 sequence-specific DNA binding site [nucleotide binding]; other site 381666016633 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 381666016634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666016635 NAD(P) binding pocket [chemical binding]; other site 381666016636 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 381666016637 Ligand binding site; other site 381666016638 Putative Catalytic site; other site 381666016639 DXD motif; other site 381666016640 Phosphopantetheine attachment site; Region: PP-binding; cl09936 381666016641 Predicted membrane protein [Function unknown]; Region: COG4648 381666016642 AMP-binding enzyme; Region: AMP-binding; cl15778 381666016643 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 381666016644 active site 2 [active] 381666016645 dimer interface [polypeptide binding]; other site 381666016646 active site 1 [active] 381666016647 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 381666016648 putative acyl-acceptor binding pocket; other site 381666016649 Predicted exporter [General function prediction only]; Region: COG4258 381666016650 Predicted exporter [General function prediction only]; Region: COG4258 381666016651 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 381666016652 NodB motif; other site 381666016653 putative active site [active] 381666016654 putative catalytic site [active] 381666016655 putative Zn binding site [ion binding]; other site 381666016656 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 381666016657 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 381666016658 dimer interface [polypeptide binding]; other site 381666016659 active site 381666016660 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 381666016661 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 381666016662 putative active site 1 [active] 381666016663 fumarylacetoacetase; Region: PLN02856 381666016664 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 381666016665 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 381666016666 Cupin domain; Region: Cupin_2; cl09118 381666016667 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 381666016668 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 381666016669 Helix-turn-helix domains; Region: HTH; cl00088 381666016670 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666016671 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 381666016672 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 381666016673 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 381666016674 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 381666016675 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 381666016676 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 381666016677 N-terminal plug; other site 381666016678 ligand-binding site [chemical binding]; other site 381666016679 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 381666016680 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666016681 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 381666016682 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 381666016683 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 381666016684 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 381666016685 Walker A/P-loop; other site 381666016686 ATP binding site [chemical binding]; other site 381666016687 Q-loop/lid; other site 381666016688 ABC transporter signature motif; other site 381666016689 Walker B; other site 381666016690 D-loop; other site 381666016691 H-loop/switch region; other site 381666016692 peptide synthase; Provisional; Region: PRK12467 381666016693 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 381666016694 AMP-binding enzyme; Region: AMP-binding; cl15778 381666016695 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 381666016696 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 381666016697 peptide synthase; Provisional; Region: PRK12467 381666016698 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 381666016699 AMP-binding enzyme; Region: AMP-binding; cl15778 381666016700 Phosphopantetheine attachment site; Region: PP-binding; cl09936 381666016701 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 381666016702 peptide synthase; Provisional; Region: PRK12467 381666016703 AMP-binding enzyme; Region: AMP-binding; cl15778 381666016704 Phosphopantetheine attachment site; Region: PP-binding; cl09936 381666016705 Condensation domain; Region: Condensation; pfam00668 381666016706 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 381666016707 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 381666016708 AMP-binding enzyme; Region: AMP-binding; cl15778 381666016709 acyl-CoA synthetase; Validated; Region: PRK08308 381666016710 Phosphopantetheine attachment site; Region: PP-binding; cl09936 381666016711 Phosphopantetheine attachment site; Region: PP-binding; cl09936 381666016712 peptide synthase; Provisional; Region: PRK12316 381666016713 AMP-binding enzyme; Region: AMP-binding; cl15778 381666016714 Phosphopantetheine attachment site; Region: PP-binding; cl09936 381666016715 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 381666016716 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 381666016717 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 381666016718 MbtH-like protein; Region: MbtH; cl01279 381666016719 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 381666016720 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 381666016721 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 381666016722 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 381666016723 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 381666016724 inhibitor-cofactor binding pocket; inhibition site 381666016725 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666016726 catalytic residue [active] 381666016727 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 381666016728 AMP-binding enzyme; Region: AMP-binding; cl15778 381666016729 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666016730 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 381666016731 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666016732 active site 381666016733 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 381666016734 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 381666016735 substrate binding site [chemical binding]; other site 381666016736 oxyanion hole (OAH) forming residues; other site 381666016737 trimer interface [polypeptide binding]; other site 381666016738 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666016739 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666016740 NAD(P) binding site [chemical binding]; other site 381666016741 active site 381666016742 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666016743 Helix-turn-helix domains; Region: HTH; cl00088 381666016744 GYD domain; Region: GYD; cl01743 381666016745 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 381666016746 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 381666016747 putative NAD(P) binding site [chemical binding]; other site 381666016748 dimer interface [polypeptide binding]; other site 381666016749 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 381666016750 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 381666016751 catalytic loop [active] 381666016752 iron binding site [ion binding]; other site 381666016753 4Fe-4S binding domain; Region: Fer4; cl02805 381666016754 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 381666016755 [4Fe-4S] binding site [ion binding]; other site 381666016756 molybdopterin cofactor binding site; other site 381666016757 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 381666016758 molybdopterin cofactor binding site; other site 381666016759 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 381666016760 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 381666016761 putative dimer interface [polypeptide binding]; other site 381666016762 [2Fe-2S] cluster binding site [ion binding]; other site 381666016763 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 381666016764 SLBB domain; Region: SLBB; pfam10531 381666016765 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 381666016766 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 381666016767 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666016768 putative substrate translocation pore; other site 381666016769 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666016770 Helix-turn-helix domains; Region: HTH; cl00088 381666016771 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 381666016772 putative dimerization interface [polypeptide binding]; other site 381666016773 Helix-turn-helix domains; Region: HTH; cl00088 381666016774 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 381666016775 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 381666016776 putative dimerization interface [polypeptide binding]; other site 381666016777 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 381666016778 acyl-CoA synthetase; Validated; Region: PRK06188 381666016779 AMP-binding enzyme; Region: AMP-binding; cl15778 381666016780 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666016781 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 381666016782 putative active site [active] 381666016783 heme pocket [chemical binding]; other site 381666016784 formyl-coenzyme A transferase; Provisional; Region: PRK05398 381666016785 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666016786 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 381666016787 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666016788 PYR/PP interface [polypeptide binding]; other site 381666016789 dimer interface [polypeptide binding]; other site 381666016790 TPP binding site [chemical binding]; other site 381666016791 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 381666016792 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 381666016793 TPP-binding site; other site 381666016794 dimer interface [polypeptide binding]; other site 381666016795 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 381666016796 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666016797 putative substrate translocation pore; other site 381666016798 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 381666016799 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 381666016800 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 381666016801 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 381666016802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666016803 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 381666016804 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 381666016805 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 381666016806 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 381666016807 formyl-coenzyme A transferase; Provisional; Region: PRK05398 381666016808 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666016809 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666016810 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666016811 DNA-binding site [nucleotide binding]; DNA binding site 381666016812 FCD domain; Region: FCD; cl11656 381666016813 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 381666016814 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666016815 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 381666016816 Integral membrane protein TerC family; Region: TerC; cl10468 381666016817 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 381666016818 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 381666016819 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666016820 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666016821 DNA-binding site [nucleotide binding]; DNA binding site 381666016822 FCD domain; Region: FCD; cl11656 381666016823 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 381666016824 EamA-like transporter family; Region: EamA; cl01037 381666016825 RNA polymerase sigma factor; Provisional; Region: PRK12511 381666016826 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666016827 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 381666016828 DNA binding residues [nucleotide binding] 381666016829 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 381666016830 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666016831 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; cl12031 381666016832 Helix-turn-helix domains; Region: HTH; cl00088 381666016833 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 381666016834 classical (c) SDRs; Region: SDR_c; cd05233 381666016835 NAD(P) binding site [chemical binding]; other site 381666016836 active site 381666016837 Cupin domain; Region: Cupin_2; cl09118 381666016838 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666016839 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666016840 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666016841 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 381666016842 putative NAD(P) binding site [chemical binding]; other site 381666016843 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 381666016844 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666016845 NAD binding site [chemical binding]; other site 381666016846 catalytic residues [active] 381666016847 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 381666016848 AMP-binding enzyme; Region: AMP-binding; cl15778 381666016849 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666016850 Helix-turn-helix domains; Region: HTH; cl00088 381666016851 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 381666016852 putative effector binding pocket; other site 381666016853 dimerization interface [polypeptide binding]; other site 381666016854 enoyl-CoA hydratase; Provisional; Region: PRK06127 381666016855 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 381666016856 substrate binding site [chemical binding]; other site 381666016857 oxyanion hole (OAH) forming residues; other site 381666016858 trimer interface [polypeptide binding]; other site 381666016859 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 381666016860 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666016861 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666016862 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 381666016863 enoyl-CoA hydratase; Provisional; Region: PRK06210 381666016864 substrate binding site [chemical binding]; other site 381666016865 oxyanion hole (OAH) forming residues; other site 381666016866 trimer interface [polypeptide binding]; other site 381666016867 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666016868 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 381666016869 substrate binding site [chemical binding]; other site 381666016870 oxyanion hole (OAH) forming residues; other site 381666016871 trimer interface [polypeptide binding]; other site 381666016872 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 381666016873 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 381666016874 4Fe-4S binding domain; Region: Fer4; cl02805 381666016875 4Fe-4S binding domain; Region: Fer4; cl02805 381666016876 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 381666016877 dimerization interface [polypeptide binding]; other site 381666016878 FAD binding pocket [chemical binding]; other site 381666016879 FAD binding motif [chemical binding]; other site 381666016880 catalytic residues [active] 381666016881 NAD binding pocket [chemical binding]; other site 381666016882 phosphate binding motif [ion binding]; other site 381666016883 beta-alpha-beta structure motif; other site 381666016884 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 381666016885 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 381666016886 NAD binding site [chemical binding]; other site 381666016887 catalytic Zn binding site [ion binding]; other site 381666016888 substrate binding site [chemical binding]; other site 381666016889 structural Zn binding site [ion binding]; other site 381666016890 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 381666016891 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 381666016892 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666016893 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666016894 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666016895 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666016896 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666016897 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 381666016898 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666016899 Magnetospirillum NAD(P)+-dependent aldehyde dehydrogenase MSR-1-like; Region: ALDH_MGR_2402; cd07108 381666016900 NAD(P) binding site [chemical binding]; other site 381666016901 catalytic residues [active] 381666016902 catalytic residues [active] 381666016903 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666016904 NMT1-like family; Region: NMT1_2; cl15260 381666016905 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 381666016906 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 381666016907 metal binding site [ion binding]; metal-binding site 381666016908 putative dimer interface [polypeptide binding]; other site 381666016909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666016910 NMT1-like family; Region: NMT1_2; cl15260 381666016911 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666016912 Helix-turn-helix domains; Region: HTH; cl00088 381666016913 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 381666016914 dimerization interface [polypeptide binding]; other site 381666016915 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 381666016916 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 381666016917 conserved cys residue [active] 381666016918 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 381666016919 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 381666016920 ATP-grasp domain; Region: ATP-grasp_4; cl03087 381666016921 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 381666016922 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 381666016923 carboxyltransferase (CT) interaction site; other site 381666016924 biotinylation site [posttranslational modification]; other site 381666016925 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 381666016926 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 381666016927 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 381666016928 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 381666016929 benzoate transport; Region: 2A0115; TIGR00895 381666016930 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666016931 putative substrate translocation pore; other site 381666016932 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666016933 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666016934 DNA-binding site [nucleotide binding]; DNA binding site 381666016935 FCD domain; Region: FCD; cl11656 381666016936 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 381666016937 FMN binding site [chemical binding]; other site 381666016938 substrate binding site [chemical binding]; other site 381666016939 putative catalytic residue [active] 381666016940 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 381666016941 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 381666016942 conserved cys residue [active] 381666016943 mercuric reductase; Validated; Region: PRK06370 381666016944 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 381666016945 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 381666016946 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 381666016947 Helix-turn-helix domains; Region: HTH; cl00088 381666016948 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 381666016949 dimerization interface [polypeptide binding]; other site 381666016950 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666016951 classical (c) SDRs; Region: SDR_c; cd05233 381666016952 NAD(P) binding site [chemical binding]; other site 381666016953 active site 381666016954 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 381666016955 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 381666016956 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666016957 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 381666016958 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 381666016959 putative active site [active] 381666016960 putative catalytic site [active] 381666016961 putative acyltransferase; Provisional; Region: PRK05790 381666016962 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 381666016963 dimer interface [polypeptide binding]; other site 381666016964 active site 381666016965 Helix-turn-helix domains; Region: HTH; cl00088 381666016966 enoyl-CoA hydratase; Provisional; Region: PRK06688 381666016967 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 381666016968 substrate binding site [chemical binding]; other site 381666016969 oxyanion hole (OAH) forming residues; other site 381666016970 trimer interface [polypeptide binding]; other site 381666016971 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666016972 Helix-turn-helix domains; Region: HTH; cl00088 381666016973 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 381666016974 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 381666016975 conserved cys residue [active] 381666016976 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666016977 MAPEG family; Region: MAPEG; cl09190 381666016978 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 381666016979 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; cl12031 381666016980 Epoxide hydrolase N terminus; Region: EHN; pfam06441 381666016981 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666016982 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666016983 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666016984 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666016985 putative substrate translocation pore; other site 381666016986 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 381666016987 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666016988 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666016989 Helix-turn-helix domains; Region: HTH; cl00088 381666016990 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 381666016991 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 381666016992 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 381666016993 ATP binding site [chemical binding]; other site 381666016994 Mg2+ binding site [ion binding]; other site 381666016995 G-X-G motif; other site 381666016996 osmolarity response regulator; Provisional; Region: ompR; PRK09468 381666016997 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666016998 active site 381666016999 phosphorylation site [posttranslational modification] 381666017000 intermolecular recognition site; other site 381666017001 dimerization interface [polypeptide binding]; other site 381666017002 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 381666017003 DNA binding site [nucleotide binding] 381666017004 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666017005 classical (c) SDRs; Region: SDR_c; cd05233 381666017006 NAD(P) binding site [chemical binding]; other site 381666017007 active site 381666017008 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666017009 Helix-turn-helix domains; Region: HTH; cl00088 381666017010 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 381666017011 putative effector binding pocket; other site 381666017012 dimerization interface [polypeptide binding]; other site 381666017013 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 381666017014 homotrimer interaction site [polypeptide binding]; other site 381666017015 putative active site [active] 381666017016 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 381666017017 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 381666017018 conserved cys residue [active] 381666017019 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666017020 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 381666017021 classical (c) SDRs; Region: SDR_c; cd05233 381666017022 NAD(P) binding site [chemical binding]; other site 381666017023 active site 381666017024 Transcriptional regulators [Transcription]; Region: PurR; COG1609 381666017025 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 381666017026 DNA binding site [nucleotide binding] 381666017027 domain linker motif; other site 381666017028 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 381666017029 dimerization interface [polypeptide binding]; other site 381666017030 ligand binding site [chemical binding]; other site 381666017031 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666017032 NMT1-like family; Region: NMT1_2; cl15260 381666017033 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 381666017034 trimer interface [polypeptide binding]; other site 381666017035 eyelet of channel; other site 381666017036 Cupin domain; Region: Cupin_2; cl09118 381666017037 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666017038 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 381666017039 NAD(P) binding site [chemical binding]; other site 381666017040 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 381666017041 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 381666017042 classical (c) SDRs; Region: SDR_c; cd05233 381666017043 NAD(P) binding site [chemical binding]; other site 381666017044 active site 381666017045 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 381666017046 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 381666017047 active site 381666017048 OsmC-like protein; Region: OsmC; cl00767 381666017049 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 381666017050 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 381666017051 OsmC-like protein; Region: OsmC; cl00767 381666017052 Cupin domain; Region: Cupin_2; cl09118 381666017053 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666017054 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666017055 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666017056 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 381666017057 NADP binding site [chemical binding]; other site 381666017058 active site 381666017059 steroid binding site; other site 381666017060 Transcriptional regulators [Transcription]; Region: PurR; COG1609 381666017061 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 381666017062 DNA binding site [nucleotide binding] 381666017063 domain linker motif; other site 381666017064 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 381666017065 putative dimerization interface [polypeptide binding]; other site 381666017066 putative ligand binding site [chemical binding]; other site 381666017067 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666017068 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 381666017069 substrate binding pocket [chemical binding]; other site 381666017070 membrane-bound complex binding site; other site 381666017071 hinge residues; other site 381666017072 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666017073 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 381666017074 dimer interface [polypeptide binding]; other site 381666017075 conserved gate region; other site 381666017076 ABC-ATPase subunit interface; other site 381666017077 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666017078 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 381666017079 dimer interface [polypeptide binding]; other site 381666017080 conserved gate region; other site 381666017081 putative PBP binding loops; other site 381666017082 ABC-ATPase subunit interface; other site 381666017083 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 381666017084 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 381666017085 Walker A/P-loop; other site 381666017086 ATP binding site [chemical binding]; other site 381666017087 Q-loop/lid; other site 381666017088 ABC transporter signature motif; other site 381666017089 Walker B; other site 381666017090 D-loop; other site 381666017091 H-loop/switch region; other site 381666017092 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 381666017093 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 381666017094 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 381666017095 substrate binding site [chemical binding]; other site 381666017096 ATP binding site [chemical binding]; other site 381666017097 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 381666017098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666017099 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666017100 NMT1-like family; Region: NMT1_2; cl15260 381666017101 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666017102 Helix-turn-helix domains; Region: HTH; cl00088 381666017103 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 381666017104 dimerization interface [polypeptide binding]; other site 381666017105 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 381666017106 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; cl09108 381666017107 phosphate binding site [ion binding]; other site 381666017108 hypothetical protein; Validated; Region: PRK06201 381666017109 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 381666017110 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 381666017111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666017112 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666017113 NMT1-like family; Region: NMT1_2; cl15260 381666017114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666017115 NMT1-like family; Region: NMT1_2; cl15260 381666017116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666017117 NMT1-like family; Region: NMT1_2; cl15260 381666017118 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 381666017119 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666017120 Helix-turn-helix domains; Region: HTH; cl00088 381666017121 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666017122 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666017123 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666017124 active site 381666017125 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 381666017126 FAD binding domain; Region: FAD_binding_4; pfam01565 381666017127 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 381666017128 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 381666017129 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 381666017130 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666017131 Walker A/P-loop; other site 381666017132 ATP binding site [chemical binding]; other site 381666017133 Q-loop/lid; other site 381666017134 ABC transporter signature motif; other site 381666017135 Walker B; other site 381666017136 D-loop; other site 381666017137 H-loop/switch region; other site 381666017138 TOBE domain; Region: TOBE_2; cl01440 381666017139 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 381666017140 dimer interface [polypeptide binding]; other site 381666017141 conserved gate region; other site 381666017142 putative PBP binding loops; other site 381666017143 ABC-ATPase subunit interface; other site 381666017144 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 381666017145 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 381666017146 dimer interface [polypeptide binding]; other site 381666017147 conserved gate region; other site 381666017148 putative PBP binding loops; other site 381666017149 ABC-ATPase subunit interface; other site 381666017150 N-acetylneuraminate lyase; Region: nanA; TIGR00683 381666017151 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 381666017152 inhibitor site; inhibition site 381666017153 active site 381666017154 dimer interface [polypeptide binding]; other site 381666017155 catalytic residue [active] 381666017156 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 381666017157 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; cl09108 381666017158 phosphate binding site [ion binding]; other site 381666017159 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 381666017160 Helix-turn-helix domains; Region: HTH; cl00088 381666017161 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666017162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666017163 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666017164 NAD(P) binding site [chemical binding]; other site 381666017165 active site 381666017166 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666017167 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 381666017168 NAD(P) binding site [chemical binding]; other site 381666017169 catalytic residues [active] 381666017170 catalytic residues [active] 381666017171 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 381666017172 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 381666017173 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 381666017174 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 381666017175 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 381666017176 putative ligand binding site [chemical binding]; other site 381666017177 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666017178 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666017179 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666017180 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 381666017181 B12 binding site [chemical binding]; other site 381666017182 cobalt ligand [ion binding]; other site 381666017183 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 381666017184 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 381666017185 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666017186 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 381666017187 substrate binding site [chemical binding]; other site 381666017188 oxyanion hole (OAH) forming residues; other site 381666017189 trimer interface [polypeptide binding]; other site 381666017190 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666017191 Helix-turn-helix domains; Region: HTH; cl00088 381666017192 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666017193 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 381666017194 putative uracil binding site [chemical binding]; other site 381666017195 putative active site [active] 381666017196 NMT1-like family; Region: NMT1_2; cl15260 381666017197 Uncharacterized conserved protein [Function unknown]; Region: COG5476 381666017198 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 381666017199 MlrC C-terminus; Region: MlrC_C; pfam07171 381666017200 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666017201 NMT1-like family; Region: NMT1_2; cl15260 381666017202 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666017203 Helix-turn-helix domains; Region: HTH; cl00088 381666017204 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 381666017205 dimerization interface [polypeptide binding]; other site 381666017206 Helix-turn-helix domains; Region: HTH; cl00088 381666017207 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666017208 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666017209 choline dehydrogenase; Validated; Region: PRK02106 381666017210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666017211 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 381666017212 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666017213 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666017214 putative substrate translocation pore; other site 381666017215 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666017216 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666017217 DNA-binding site [nucleotide binding]; DNA binding site 381666017218 FCD domain; Region: FCD; cl11656 381666017219 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 381666017220 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; cl12031 381666017221 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 381666017222 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 381666017223 Mechanosensitive ion channel; Region: MS_channel; pfam00924 381666017224 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 381666017225 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666017226 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666017227 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666017228 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 381666017229 PemK-like protein; Region: PemK; cl00995 381666017230 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 381666017231 active site residue [active] 381666017232 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 381666017233 active site residue [active] 381666017234 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 381666017235 active site residue [active] 381666017236 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 381666017237 active site residue [active] 381666017238 Cysteine dioxygenase type I; Region: CDO_I; cl15835 381666017239 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 381666017240 active site 381666017241 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 381666017242 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 381666017243 dimer interface [polypeptide binding]; other site 381666017244 active site 381666017245 non-prolyl cis peptide bond; other site 381666017246 insertion regions; other site 381666017247 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 381666017248 NMT1-like family; Region: NMT1_2; cl15260 381666017249 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 381666017250 dimer interface [polypeptide binding]; other site 381666017251 conserved gate region; other site 381666017252 putative PBP binding loops; other site 381666017253 ABC-ATPase subunit interface; other site 381666017254 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 381666017255 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 381666017256 Walker A/P-loop; other site 381666017257 ATP binding site [chemical binding]; other site 381666017258 Q-loop/lid; other site 381666017259 ABC transporter signature motif; other site 381666017260 Walker B; other site 381666017261 D-loop; other site 381666017262 H-loop/switch region; other site 381666017263 Cytochrome c; Region: Cytochrom_C; cl11414 381666017264 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 381666017265 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666017266 PYR/PP interface [polypeptide binding]; other site 381666017267 dimer interface [polypeptide binding]; other site 381666017268 TPP binding site [chemical binding]; other site 381666017269 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 381666017270 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 381666017271 TPP-binding site; other site 381666017272 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 381666017273 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 381666017274 putative sialic acid transporter; Region: 2A0112; TIGR00891 381666017275 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666017276 putative substrate translocation pore; other site 381666017277 amidase; Provisional; Region: PRK06170 381666017278 Amidase; Region: Amidase; cl11426 381666017279 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666017280 DNA-binding site [nucleotide binding]; DNA binding site 381666017281 FCD domain; Region: FCD; cl11656 381666017282 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 381666017283 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 381666017284 catalytic loop [active] 381666017285 iron binding site [ion binding]; other site 381666017286 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 381666017287 FAD binding pocket [chemical binding]; other site 381666017288 FAD binding motif [chemical binding]; other site 381666017289 phosphate binding motif [ion binding]; other site 381666017290 beta-alpha-beta structure motif; other site 381666017291 NAD binding pocket [chemical binding]; other site 381666017292 Domain of unknown function (DUF336); Region: DUF336; cl01249 381666017293 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 381666017294 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666017295 NAD(P) binding site [chemical binding]; other site 381666017296 catalytic residues [active] 381666017297 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 381666017298 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 381666017299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666017300 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 381666017301 catalytic loop [active] 381666017302 iron binding site [ion binding]; other site 381666017303 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 381666017304 Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]; Region: CobT; COG4547 381666017305 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 381666017306 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 381666017307 metal ion-dependent adhesion site (MIDAS); other site 381666017308 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 381666017309 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 381666017310 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666017311 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 381666017312 Helix-turn-helix domains; Region: HTH; cl00088 381666017313 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666017314 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 381666017315 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 381666017316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666017317 DNA-binding site [nucleotide binding]; DNA binding site 381666017318 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 381666017319 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666017320 homodimer interface [polypeptide binding]; other site 381666017321 catalytic residue [active] 381666017322 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 381666017323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666017324 FAD dependent oxidoreductase; Region: DAO; pfam01266 381666017325 classical (c) SDRs; Region: SDR_c; cd05233 381666017326 NAD(P) binding site [chemical binding]; other site 381666017327 active site 381666017328 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666017329 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666017330 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 381666017331 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 381666017332 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 381666017333 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 381666017334 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 381666017335 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 381666017336 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 381666017337 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 381666017338 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 381666017339 Coenzyme A binding pocket [chemical binding]; other site 381666017340 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666017341 Helix-turn-helix domains; Region: HTH; cl00088 381666017342 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 381666017343 putative effector binding pocket; other site 381666017344 dimerization interface [polypeptide binding]; other site 381666017345 DUF35 OB-fold domain; Region: DUF35; pfam01796 381666017346 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 381666017347 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 381666017348 active site 381666017349 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666017350 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666017351 NAD(P) binding site [chemical binding]; other site 381666017352 active site 381666017353 enoyl-CoA hydratase; Provisional; Region: PRK06494 381666017354 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 381666017355 substrate binding site [chemical binding]; other site 381666017356 oxyanion hole (OAH) forming residues; other site 381666017357 trimer interface [polypeptide binding]; other site 381666017358 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666017359 NMT1-like family; Region: NMT1_2; cl15260 381666017360 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 381666017361 CoenzymeA binding site [chemical binding]; other site 381666017362 subunit interaction site [polypeptide binding]; other site 381666017363 PHB binding site; other site 381666017364 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666017365 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666017366 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666017367 Helix-turn-helix domains; Region: HTH; cl00088 381666017368 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 381666017369 dimerization interface [polypeptide binding]; other site 381666017370 substrate binding pocket [chemical binding]; other site 381666017371 short chain dehydrogenase; Provisional; Region: PRK06180 381666017372 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 381666017373 NADP binding site [chemical binding]; other site 381666017374 active site 381666017375 steroid binding site; other site 381666017376 elongation factor G; Reviewed; Region: PRK13351 381666017377 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 381666017378 G1 box; other site 381666017379 putative GEF interaction site [polypeptide binding]; other site 381666017380 GTP/Mg2+ binding site [chemical binding]; other site 381666017381 Switch I region; other site 381666017382 G2 box; other site 381666017383 G3 box; other site 381666017384 Switch II region; other site 381666017385 G4 box; other site 381666017386 G5 box; other site 381666017387 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 381666017388 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 381666017389 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 381666017390 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 381666017391 4Fe-4S binding domain; Region: Fer4; cl02805 381666017392 4Fe-4S binding domain; Region: Fer4; cl02805 381666017393 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 381666017394 FAD binding pocket [chemical binding]; other site 381666017395 conserved FAD binding motif [chemical binding]; other site 381666017396 phosphate binding motif [ion binding]; other site 381666017397 beta-alpha-beta structure motif; other site 381666017398 NAD binding pocket [chemical binding]; other site 381666017399 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 381666017400 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 381666017401 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 381666017402 substrate binding site [chemical binding]; other site 381666017403 oxyanion hole (OAH) forming residues; other site 381666017404 trimer interface [polypeptide binding]; other site 381666017405 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 381666017406 trimer interface [polypeptide binding]; other site 381666017407 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 381666017408 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 381666017409 non-specific DNA binding site [nucleotide binding]; other site 381666017410 salt bridge; other site 381666017411 sequence-specific DNA binding site [nucleotide binding]; other site 381666017412 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 381666017413 ADP binding site [chemical binding]; other site 381666017414 magnesium binding site [ion binding]; other site 381666017415 putative shikimate binding site; other site 381666017416 Cupin domain; Region: Cupin_2; cl09118 381666017417 aldehyde dehydrogenase; Provisional; Region: PRK11903 381666017418 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 381666017419 NAD(P) binding site [chemical binding]; other site 381666017420 catalytic residues [active] 381666017421 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 381666017422 AMP-binding enzyme; Region: AMP-binding; cl15778 381666017423 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666017424 benzoate transport; Region: 2A0115; TIGR00895 381666017425 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666017426 putative substrate translocation pore; other site 381666017427 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666017428 Isochorismatase family; Region: Isochorismatase; pfam00857 381666017429 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 381666017430 catalytic triad [active] 381666017431 dimer interface [polypeptide binding]; other site 381666017432 conserved cis-peptide bond; other site 381666017433 Isochorismatase family; Region: Isochorismatase; pfam00857 381666017434 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 381666017435 catalytic triad [active] 381666017436 dimer interface [polypeptide binding]; other site 381666017437 conserved cis-peptide bond; other site 381666017438 LysR family transcriptional regulator; Provisional; Region: PRK14997 381666017439 Helix-turn-helix domains; Region: HTH; cl00088 381666017440 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 381666017441 putative effector binding pocket; other site 381666017442 putative dimerization interface [polypeptide binding]; other site 381666017443 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 381666017444 rRNA binding site [nucleotide binding]; other site 381666017445 predicted 30S ribosome binding site; other site 381666017446 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 protein; Region: CSP_CDS; cd04458 381666017447 DNA-binding site [nucleotide binding]; DNA binding site 381666017448 RNA-binding motif; other site 381666017449 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 381666017450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 381666017451 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 381666017452 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 381666017453 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 381666017454 dimerization interface [polypeptide binding]; other site 381666017455 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 381666017456 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666017457 dimer interface [polypeptide binding]; other site 381666017458 putative CheW interface [polypeptide binding]; other site 381666017459 Phasin protein; Region: Phasin_2; cl11491 381666017460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 381666017461 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 381666017462 Helix-turn-helix domains; Region: HTH; cl00088 381666017463 LysR family transcriptional regulator; Provisional; Region: PRK14997 381666017464 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 381666017465 putative effector binding pocket; other site 381666017466 dimerization interface [polypeptide binding]; other site 381666017467 NMT1-like family; Region: NMT1_2; cl15260 381666017468 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 381666017469 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666017470 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 381666017471 NAD(P) binding site [chemical binding]; other site 381666017472 catalytic residues [active] 381666017473 Transmembrane secretion effector; Region: MFS_3; pfam05977 381666017474 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666017475 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 381666017476 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 381666017477 active site 381666017478 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 381666017479 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; cl12031 381666017480 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; cl12031 381666017481 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 381666017482 Isochorismatase family; Region: Isochorismatase; pfam00857 381666017483 catalytic triad [active] 381666017484 dimer interface [polypeptide binding]; other site 381666017485 conserved cis-peptide bond; other site 381666017486 glutamate dehydrogenase; Provisional; Region: PRK09414 381666017487 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 381666017488 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 381666017489 NAD(P) binding site [chemical binding]; other site 381666017490 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 381666017491 Helix-turn-helix domains; Region: HTH; cl00088 381666017492 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 381666017493 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666017494 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 381666017495 NAD(P) binding site [chemical binding]; other site 381666017496 catalytic residues [active] 381666017497 Sulfatase; Region: Sulfatase; cl10460 381666017498 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 381666017499 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 381666017500 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666017501 DNA-binding site [nucleotide binding]; DNA binding site 381666017502 FCD domain; Region: FCD; cl11656 381666017503 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 381666017504 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 381666017505 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 381666017506 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666017507 Walker A/P-loop; other site 381666017508 ATP binding site [chemical binding]; other site 381666017509 Q-loop/lid; other site 381666017510 ABC transporter signature motif; other site 381666017511 Walker B; other site 381666017512 D-loop; other site 381666017513 H-loop/switch region; other site 381666017514 TOBE domain; Region: TOBE_2; cl01440 381666017515 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 381666017516 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 381666017517 dimer interface [polypeptide binding]; other site 381666017518 conserved gate region; other site 381666017519 putative PBP binding loops; other site 381666017520 ABC-ATPase subunit interface; other site 381666017521 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 381666017522 dimer interface [polypeptide binding]; other site 381666017523 conserved gate region; other site 381666017524 putative PBP binding loops; other site 381666017525 ABC-ATPase subunit interface; other site 381666017526 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 381666017527 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 381666017528 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 381666017529 catalytic residue [active] 381666017530 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 381666017531 EamA-like transporter family; Region: EamA; cl01037 381666017532 FAD dependent oxidoreductase; Region: DAO; pfam01266 381666017533 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666017534 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 381666017535 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 381666017536 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 381666017537 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 381666017538 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 381666017539 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 381666017540 putative active site [active] 381666017541 putative substrate binding site [chemical binding]; other site 381666017542 putative cosubstrate binding site; other site 381666017543 catalytic site [active] 381666017544 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 381666017545 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666017546 DNA-binding site [nucleotide binding]; DNA binding site 381666017547 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 381666017548 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666017549 homodimer interface [polypeptide binding]; other site 381666017550 catalytic residue [active] 381666017551 LysE type translocator; Region: LysE; cl00565 381666017552 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 381666017553 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 381666017554 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666017555 NAD(P) binding site [chemical binding]; other site 381666017556 catalytic residues [active] 381666017557 Protein of unknown function (DUF779); Region: DUF779; cl01432 381666017558 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 381666017559 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 381666017560 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 381666017561 Walker A motif; other site 381666017562 ATP binding site [chemical binding]; other site 381666017563 Walker B motif; other site 381666017564 arginine finger; other site 381666017565 Helix-turn-helix domains; Region: HTH; cl00088 381666017566 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 381666017567 Transglycosylase; Region: Transgly; cl07896 381666017568 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 381666017569 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666017570 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 381666017571 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 381666017572 transmembrane helices; other site 381666017573 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 381666017574 GTP cyclohydrolase I; Provisional; Region: PLN03044 381666017575 active site 381666017576 Sensors of blue-light using FAD; Region: BLUF; cl04855 381666017577 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666017578 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666017579 active site 381666017580 phosphorylation site [posttranslational modification] 381666017581 intermolecular recognition site; other site 381666017582 dimerization interface [polypeptide binding]; other site 381666017583 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 381666017584 DNA binding residues [nucleotide binding] 381666017585 dimerization interface [polypeptide binding]; other site 381666017586 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 381666017587 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 381666017588 dimer interface [polypeptide binding]; other site 381666017589 phosphorylation site [posttranslational modification] 381666017590 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 381666017591 ATP binding site [chemical binding]; other site 381666017592 Mg2+ binding site [ion binding]; other site 381666017593 G-X-G motif; other site 381666017594 Response regulator receiver domain; Region: Response_reg; pfam00072 381666017595 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666017596 active site 381666017597 phosphorylation site [posttranslational modification] 381666017598 intermolecular recognition site; other site 381666017599 dimerization interface [polypeptide binding]; other site 381666017600 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666017601 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 381666017602 putative substrate translocation pore; other site 381666017603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666017604 NMT1-like family; Region: NMT1_2; cl15260 381666017605 classical (c) SDRs; Region: SDR_c; cd05233 381666017606 NAD(P) binding site [chemical binding]; other site 381666017607 active site 381666017608 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666017609 Helix-turn-helix domains; Region: HTH; cl00088 381666017610 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666017611 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 381666017612 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 381666017613 N-terminal plug; other site 381666017614 ligand-binding site [chemical binding]; other site 381666017615 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 381666017616 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666017617 DNA-binding site [nucleotide binding]; DNA binding site 381666017618 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 381666017619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666017620 homodimer interface [polypeptide binding]; other site 381666017621 catalytic residue [active] 381666017622 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 381666017623 LysE type translocator; Region: LysE; cl00565 381666017624 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 381666017625 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 381666017626 dimer interface [polypeptide binding]; other site 381666017627 PYR/PP interface [polypeptide binding]; other site 381666017628 TPP binding site [chemical binding]; other site 381666017629 substrate binding site [chemical binding]; other site 381666017630 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 381666017631 TPP-binding site; other site 381666017632 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 381666017633 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666017634 Helix-turn-helix domains; Region: HTH; cl00088 381666017635 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 381666017636 putative substrate binding pocket [chemical binding]; other site 381666017637 dimerization interface [polypeptide binding]; other site 381666017638 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666017639 Helix-turn-helix domains; Region: HTH; cl00088 381666017640 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 381666017641 putative effector binding pocket; other site 381666017642 dimerization interface [polypeptide binding]; other site 381666017643 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 381666017644 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 381666017645 conserved cys residue [active] 381666017646 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666017647 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666017648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666017649 NADH(P)-binding; Region: NAD_binding_10; pfam13460 381666017650 NAD(P) binding site [chemical binding]; other site 381666017651 active site 381666017652 OsmC-like protein; Region: OsmC; cl00767 381666017653 Cupin domain; Region: Cupin_2; cl09118 381666017654 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666017655 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666017656 putative substrate translocation pore; other site 381666017657 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666017658 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666017659 short chain dehydrogenase; Provisional; Region: PRK06523 381666017660 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666017661 NAD(P) binding site [chemical binding]; other site 381666017662 active site 381666017663 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 381666017664 Helix-turn-helix domains; Region: HTH; cl00088 381666017665 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 381666017666 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 381666017667 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 381666017668 GDP-binding site [chemical binding]; other site 381666017669 ACT binding site; other site 381666017670 IMP binding site; other site 381666017671 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 381666017672 homotrimer interaction site [polypeptide binding]; other site 381666017673 putative active site [active] 381666017674 Cupin domain; Region: Cupin_2; cl09118 381666017675 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 381666017676 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666017677 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 381666017678 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; cl12031 381666017679 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 381666017680 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 381666017681 non-specific DNA binding site [nucleotide binding]; other site 381666017682 salt bridge; other site 381666017683 sequence-specific DNA binding site [nucleotide binding]; other site 381666017684 Cupin domain; Region: Cupin_2; cl09118 381666017685 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666017686 NMT1-like family; Region: NMT1_2; cl15260 381666017687 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 381666017688 intersubunit interface [polypeptide binding]; other site 381666017689 active site 381666017690 Zn2+ binding site [ion binding]; other site 381666017691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666017692 NMT1-like family; Region: NMT1_2; cl15260 381666017693 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666017694 Helix-turn-helix domains; Region: HTH; cl00088 381666017695 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 381666017696 putative effector binding pocket; other site 381666017697 dimerization interface [polypeptide binding]; other site 381666017698 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666017699 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666017700 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 381666017701 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 381666017702 NAD(P) binding site [chemical binding]; other site 381666017703 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666017704 NMT1-like family; Region: NMT1_2; cl15260 381666017705 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 381666017706 oligomeric interface; other site 381666017707 putative active site [active] 381666017708 homodimer interface [polypeptide binding]; other site 381666017709 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 381666017710 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 381666017711 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 381666017712 dimerization interface [polypeptide binding]; other site 381666017713 ligand binding site [chemical binding]; other site 381666017714 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 381666017715 TM-ABC transporter signature motif; other site 381666017716 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 381666017717 TM-ABC transporter signature motif; other site 381666017718 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666017719 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 381666017720 Walker A/P-loop; other site 381666017721 ATP binding site [chemical binding]; other site 381666017722 Q-loop/lid; other site 381666017723 ABC transporter signature motif; other site 381666017724 Walker B; other site 381666017725 D-loop; other site 381666017726 H-loop/switch region; other site 381666017727 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666017728 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 381666017729 Walker A/P-loop; other site 381666017730 ATP binding site [chemical binding]; other site 381666017731 Q-loop/lid; other site 381666017732 ABC transporter signature motif; other site 381666017733 Walker B; other site 381666017734 D-loop; other site 381666017735 H-loop/switch region; other site 381666017736 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 381666017737 Amidase; Region: Amidase; cl11426 381666017738 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 381666017739 allantoate amidohydrolase; Reviewed; Region: PRK12893 381666017740 active site 381666017741 metal binding site [ion binding]; metal-binding site 381666017742 dimer interface [polypeptide binding]; other site 381666017743 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 381666017744 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 381666017745 non-specific DNA binding site [nucleotide binding]; other site 381666017746 salt bridge; other site 381666017747 sequence-specific DNA binding site [nucleotide binding]; other site 381666017748 Cupin domain; Region: Cupin_2; cl09118 381666017749 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 381666017750 Phasin protein; Region: Phasin_2; cl11491 381666017751 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 protein; Region: CSP_CDS; cd04458 381666017752 DNA-binding site [nucleotide binding]; DNA binding site 381666017753 RNA-binding motif; other site 381666017754 Transglycosylase; Region: Transgly; cl07896 381666017755 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 381666017756 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666017757 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 381666017758 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 381666017759 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 381666017760 P-loop; other site 381666017761 Magnesium ion binding site [ion binding]; other site 381666017762 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 381666017763 Magnesium ion binding site [ion binding]; other site 381666017764 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 381666017765 active site 381666017766 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 381666017767 TM-ABC transporter signature motif; other site 381666017768 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 381666017769 TM-ABC transporter signature motif; other site 381666017770 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 381666017771 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 381666017772 Walker A/P-loop; other site 381666017773 ATP binding site [chemical binding]; other site 381666017774 Q-loop/lid; other site 381666017775 ABC transporter signature motif; other site 381666017776 Walker B; other site 381666017777 D-loop; other site 381666017778 H-loop/switch region; other site 381666017779 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666017780 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 381666017781 Walker A/P-loop; other site 381666017782 ATP binding site [chemical binding]; other site 381666017783 Q-loop/lid; other site 381666017784 ABC transporter signature motif; other site 381666017785 Walker B; other site 381666017786 D-loop; other site 381666017787 H-loop/switch region; other site 381666017788 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 381666017789 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 381666017790 putative ligand binding site [chemical binding]; other site 381666017791 FecR protein; Region: FecR; pfam04773 381666017792 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666017793 metal binding site [ion binding]; metal-binding site 381666017794 active site 381666017795 I-site; other site 381666017796 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 381666017797 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 381666017798 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 381666017799 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666017800 dimer interface [polypeptide binding]; other site 381666017801 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 381666017802 putative CheW interface [polypeptide binding]; other site 381666017803 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 381666017804 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 381666017805 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; cl16911 381666017806 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 381666017807 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 381666017808 putative binding surface; other site 381666017809 active site 381666017810 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 381666017811 ATP binding site [chemical binding]; other site 381666017812 Mg2+ binding site [ion binding]; other site 381666017813 G-X-G motif; other site 381666017814 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 381666017815 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666017816 Response regulator receiver domain; Region: Response_reg; pfam00072 381666017817 active site 381666017818 phosphorylation site [posttranslational modification] 381666017819 intermolecular recognition site; other site 381666017820 dimerization interface [polypeptide binding]; other site 381666017821 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 381666017822 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666017823 active site 381666017824 phosphorylation site [posttranslational modification] 381666017825 intermolecular recognition site; other site 381666017826 dimerization interface [polypeptide binding]; other site 381666017827 CheB methylesterase; Region: CheB_methylest; pfam01339 381666017828 Response regulator receiver domain; Region: Response_reg; pfam00072 381666017829 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666017830 active site 381666017831 phosphorylation site [posttranslational modification] 381666017832 intermolecular recognition site; other site 381666017833 dimerization interface [polypeptide binding]; other site 381666017834 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666017835 metal binding site [ion binding]; metal-binding site 381666017836 active site 381666017837 I-site; other site 381666017838 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 381666017839 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 381666017840 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 381666017841 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 381666017842 MatE; Region: MatE; cl10513 381666017843 MatE; Region: MatE; cl10513 381666017844 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 381666017845 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666017846 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 381666017847 tetramerization interface [polypeptide binding]; other site 381666017848 NAD(P) binding site [chemical binding]; other site 381666017849 catalytic residues [active] 381666017850 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 381666017851 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 381666017852 Subunit I/III interface [polypeptide binding]; other site 381666017853 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 381666017854 Subunit I/III interface [polypeptide binding]; other site 381666017855 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 381666017856 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 381666017857 D-pathway; other site 381666017858 Low-spin heme binding site [chemical binding]; other site 381666017859 Putative water exit pathway; other site 381666017860 Binuclear center (active site) [active] 381666017861 K-pathway; other site 381666017862 Putative proton exit pathway; other site 381666017863 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 381666017864 Cytochrome c; Region: Cytochrom_C; cl11414 381666017865 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 381666017866 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666017867 Helix-turn-helix domains; Region: HTH; cl00088 381666017868 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 381666017869 dimerization interface [polypeptide binding]; other site 381666017870 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666017871 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666017872 putative substrate translocation pore; other site 381666017873 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 381666017874 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 381666017875 allantoate amidohydrolase; Reviewed; Region: PRK12893 381666017876 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 381666017877 active site 381666017878 metal binding site [ion binding]; metal-binding site 381666017879 dimer interface [polypeptide binding]; other site 381666017880 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 381666017881 Rubredoxin; Region: Rubredoxin; pfam00301 381666017882 iron binding site [ion binding]; other site 381666017883 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 381666017884 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 381666017885 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 381666017886 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 381666017887 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 381666017888 ligand binding site [chemical binding]; other site 381666017889 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666017890 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666017891 putative substrate translocation pore; other site 381666017892 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 381666017893 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; cl12031 381666017894 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 381666017895 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 381666017896 ligand binding site [chemical binding]; other site 381666017897 flexible hinge region; other site 381666017898 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 381666017899 putative switch regulator; other site 381666017900 non-specific DNA interactions [nucleotide binding]; other site 381666017901 DNA binding site [nucleotide binding] 381666017902 sequence specific DNA binding site [nucleotide binding]; other site 381666017903 putative cAMP binding site [chemical binding]; other site 381666017904 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 381666017905 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 381666017906 Helix-turn-helix domains; Region: HTH; cl00088 381666017907 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666017908 Helix-turn-helix domains; Region: HTH; cl00088 381666017909 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 381666017910 dimerization interface [polypeptide binding]; other site 381666017911 transcriptional regulator RcsB; Provisional; Region: PRK10840 381666017912 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666017913 active site 381666017914 phosphorylation site [posttranslational modification] 381666017915 intermolecular recognition site; other site 381666017916 dimerization interface [polypeptide binding]; other site 381666017917 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 381666017918 DNA binding residues [nucleotide binding] 381666017919 dimerization interface [polypeptide binding]; other site 381666017920 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666017921 Helix-turn-helix domains; Region: HTH; cl00088 381666017922 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666017923 Major Facilitator Superfamily; Region: MFS_1; pfam07690 381666017924 putative substrate translocation pore; other site 381666017925 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666017926 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 381666017927 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 381666017928 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 381666017929 dimer interface [polypeptide binding]; other site 381666017930 phosphorylation site [posttranslational modification] 381666017931 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 381666017932 ATP binding site [chemical binding]; other site 381666017933 Mg2+ binding site [ion binding]; other site 381666017934 G-X-G motif; other site 381666017935 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666017936 active site 381666017937 phosphorylation site [posttranslational modification] 381666017938 intermolecular recognition site; other site 381666017939 dimerization interface [polypeptide binding]; other site 381666017940 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666017941 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 381666017942 DNA binding residues [nucleotide binding] 381666017943 dimerization interface [polypeptide binding]; other site 381666017944 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666017945 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666017946 active site 381666017947 phosphorylation site [posttranslational modification] 381666017948 intermolecular recognition site; other site 381666017949 dimerization interface [polypeptide binding]; other site 381666017950 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 381666017951 DNA binding residues [nucleotide binding] 381666017952 dimerization interface [polypeptide binding]; other site 381666017953 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 381666017954 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 381666017955 dimer interface [polypeptide binding]; other site 381666017956 phosphorylation site [posttranslational modification] 381666017957 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 381666017958 ATP binding site [chemical binding]; other site 381666017959 Mg2+ binding site [ion binding]; other site 381666017960 G-X-G motif; other site 381666017961 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666017962 active site 381666017963 phosphorylation site [posttranslational modification] 381666017964 intermolecular recognition site; other site 381666017965 dimerization interface [polypeptide binding]; other site 381666017966 Fimbrial protein; Region: Fimbrial; cl01416 381666017967 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 381666017968 PapC N-terminal domain; Region: PapC_N; pfam13954 381666017969 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 381666017970 PapC C-terminal domain; Region: PapC_C; pfam13953 381666017971 putative chaperone protein EcpD; Provisional; Region: PRK09926 381666017972 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 381666017973 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 381666017974 Fimbrial protein; Region: Fimbrial; cl01416 381666017975 sensory histidine kinase CreC; Provisional; Region: PRK11100 381666017976 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 381666017977 dimerization interface [polypeptide binding]; other site 381666017978 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 381666017979 ATP binding site [chemical binding]; other site 381666017980 Mg2+ binding site [ion binding]; other site 381666017981 G-X-G motif; other site 381666017982 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666017983 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666017984 active site 381666017985 phosphorylation site [posttranslational modification] 381666017986 intermolecular recognition site; other site 381666017987 dimerization interface [polypeptide binding]; other site 381666017988 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 381666017989 DNA binding site [nucleotide binding] 381666017990 enterobactin receptor protein; Provisional; Region: PRK13483 381666017991 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 381666017992 N-terminal plug; other site 381666017993 ligand-binding site [chemical binding]; other site 381666017994 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 381666017995 trehalase; Provisional; Region: treF; PRK13270 381666017996 putative transporter; Provisional; Region: PRK10504 381666017997 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666017998 putative substrate translocation pore; other site 381666017999 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 381666018000 Helix-turn-helix domains; Region: HTH; cl00088 381666018001 Helix-turn-helix domains; Region: HTH; cl00088 381666018002 Phosphopantetheine attachment site; Region: PP-binding; cl09936 381666018003 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07768 381666018004 AMP-binding enzyme; Region: AMP-binding; cl15778 381666018005 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 381666018006 putative acyl-acceptor binding pocket; other site 381666018007 Integral membrane protein TerC family; Region: TerC; cl10468 381666018008 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 381666018009 Ligand Binding Site [chemical binding]; other site 381666018010 DDE superfamily endonuclease; Region: DDE_4; cl15789 381666018011 Transposase domain (DUF772); Region: DUF772; pfam05598 381666018012 RHS Repeat; Region: RHS_repeat; cl11982 381666018013 RHS Repeat; Region: RHS_repeat; cl11982 381666018014 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 381666018015 RHS Repeat; Region: RHS_repeat; cl11982 381666018016 RHS Repeat; Region: RHS_repeat; cl11982 381666018017 RHS Repeat; Region: RHS_repeat; cl11982 381666018018 RHS Repeat; Region: RHS_repeat; cl11982 381666018019 RHS protein; Region: RHS; pfam03527 381666018020 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 381666018021 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 381666018022 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 381666018023 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 381666018024 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 381666018025 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 381666018026 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 381666018027 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 381666018028 N-terminal plug; other site 381666018029 ligand-binding site [chemical binding]; other site 381666018030 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 381666018031 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 381666018032 metabolite-proton symporter; Region: 2A0106; TIGR00883 381666018033 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; cl09155 381666018034 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666018035 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666018036 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 381666018037 Helix-turn-helix domains; Region: HTH; cl00088 381666018038 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 381666018039 putative dimerization interface [polypeptide binding]; other site 381666018040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666018041 NMT1-like family; Region: NMT1_2; cl15260 381666018042 ABC-2 type transporter; Region: ABC2_membrane; cl11417 381666018043 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 381666018044 ABC-2 type transporter; Region: ABC2_membrane; cl11417 381666018045 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 381666018046 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 381666018047 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 381666018048 Walker A/P-loop; other site 381666018049 ATP binding site [chemical binding]; other site 381666018050 Q-loop/lid; other site 381666018051 ABC transporter signature motif; other site 381666018052 Walker B; other site 381666018053 D-loop; other site 381666018054 H-loop/switch region; other site 381666018055 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 381666018056 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 381666018057 N-terminal plug; other site 381666018058 ligand-binding site [chemical binding]; other site 381666018059 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 381666018060 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666018061 dimer interface [polypeptide binding]; other site 381666018062 putative CheW interface [polypeptide binding]; other site 381666018063 hypothetical protein; Provisional; Region: PRK07483 381666018064 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 381666018065 inhibitor-cofactor binding pocket; inhibition site 381666018066 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666018067 catalytic residue [active] 381666018068 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 381666018069 Amidohydrolase family; Region: Amidohydro_3; pfam07969 381666018070 active site 381666018071 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 381666018072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666018073 NMT1-like family; Region: NMT1_2; cl15260 381666018074 amidase; Provisional; Region: PRK09201 381666018075 Amidase; Region: Amidase; cl11426 381666018076 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666018077 D-galactonate transporter; Region: 2A0114; TIGR00893 381666018078 putative substrate translocation pore; other site 381666018079 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 381666018080 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 381666018081 non-specific DNA binding site [nucleotide binding]; other site 381666018082 salt bridge; other site 381666018083 sequence-specific DNA binding site [nucleotide binding]; other site 381666018084 putative diguanylate cyclase; Provisional; Region: PRK09776 381666018085 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 381666018086 PAS fold; Region: PAS_3; pfam08447 381666018087 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 381666018088 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 381666018089 [2Fe-2S] cluster binding site [ion binding]; other site 381666018090 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 381666018091 putative alpha subunit interface [polypeptide binding]; other site 381666018092 putative active site [active] 381666018093 putative substrate binding site [chemical binding]; other site 381666018094 Fe binding site [ion binding]; other site 381666018095 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 381666018096 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666018097 tetramerization interface [polypeptide binding]; other site 381666018098 NAD(P) binding site [chemical binding]; other site 381666018099 catalytic residues [active] 381666018100 choline dehydrogenase; Validated; Region: PRK02106 381666018101 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666018102 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 381666018103 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 381666018104 Amino acid permease; Region: AA_permease_2; pfam13520 381666018105 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 381666018106 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 381666018107 FMN-binding pocket [chemical binding]; other site 381666018108 flavin binding motif; 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 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 381666018113 catalytic loop [active] 381666018114 iron binding site [ion binding]; other site 381666018115 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 381666018116 putative hydrophobic ligand binding site [chemical binding]; other site 381666018117 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 381666018118 dimerization interface [polypeptide binding]; other site 381666018119 putative DNA binding site [nucleotide binding]; other site 381666018120 putative Zn2+ binding site [ion binding]; other site 381666018121 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 381666018122 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666018123 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 381666018124 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 381666018125 Walker A/P-loop; other site 381666018126 ATP binding site [chemical binding]; other site 381666018127 Q-loop/lid; other site 381666018128 ABC transporter signature motif; other site 381666018129 Walker B; other site 381666018130 D-loop; other site 381666018131 H-loop/switch region; other site 381666018132 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 381666018133 FtsX-like permease family; Region: FtsX; cl15850 381666018134 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 381666018135 FtsX-like permease family; Region: FtsX; cl15850 381666018136 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 381666018137 NMT1-like family; Region: NMT1_2; cl15260 381666018138 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 381666018139 Electron transfer DM13; Region: DM13; cl02735 381666018140 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 381666018141 trimer interface [polypeptide binding]; other site 381666018142 eyelet of channel; other site 381666018143 Transglycosylase; Region: Transgly; cl07896 381666018144 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666018145 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 381666018146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 381666018147 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 381666018148 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 381666018149 Cupin domain; Region: Cupin_2; cl09118 381666018150 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666018151 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666018152 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 381666018153 Helix-turn-helix domains; Region: HTH; cl00088 381666018154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666018155 NMT1-like family; Region: NMT1_2; cl15260 381666018156 enoyl-CoA hydratase; Provisional; Region: PRK06688 381666018157 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 381666018158 substrate binding site [chemical binding]; other site 381666018159 oxyanion hole (OAH) forming residues; other site 381666018160 trimer interface [polypeptide binding]; other site 381666018161 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666018162 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 381666018163 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666018164 active site 381666018165 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666018166 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666018167 active site 381666018168 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666018169 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666018170 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 381666018171 Double zinc ribbon; Region: DZR; pfam12773 381666018172 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 381666018173 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 381666018174 cyclase homology domain; Region: CHD; cd07302 381666018175 nucleotidyl binding site; other site 381666018176 metal binding site [ion binding]; metal-binding site 381666018177 dimer interface [polypeptide binding]; other site 381666018178 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666018179 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 381666018180 FMN binding site [chemical binding]; other site 381666018181 active site 381666018182 substrate binding site [chemical binding]; other site 381666018183 catalytic residue [active] 381666018184 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 381666018185 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 381666018186 active site 381666018187 catalytic tetrad [active] 381666018188 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666018189 Helix-turn-helix domains; Region: HTH; cl00088 381666018190 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 381666018191 putative effector binding pocket; other site 381666018192 dimerization interface [polypeptide binding]; other site 381666018193 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 381666018194 FMN binding site [chemical binding]; other site 381666018195 active site 381666018196 substrate binding site [chemical binding]; other site 381666018197 catalytic residue [active] 381666018198 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 381666018199 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 381666018200 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 381666018201 active site 381666018202 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 381666018203 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 381666018204 putative NADP binding site [chemical binding]; other site 381666018205 putative substrate binding site [chemical binding]; other site 381666018206 active site 381666018207 LytB protein; Region: LYTB; cl00507 381666018208 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 381666018209 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 381666018210 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 381666018211 FeS/SAM binding site; other site 381666018212 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 381666018213 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 381666018214 ligand binding site; other site 381666018215 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 381666018216 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 381666018217 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 381666018218 B12 binding site [chemical binding]; other site 381666018219 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 381666018220 FeS/SAM binding site; other site 381666018221 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 381666018222 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 381666018223 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 381666018224 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 381666018225 VacJ like lipoprotein; Region: VacJ; cl01073 381666018226 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 381666018227 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 381666018228 Copper resistance protein D; Region: CopD; cl00563 381666018229 Bacterial Ig-like domain; Region: Big_5; cl01012 381666018230 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 381666018231 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 381666018232 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 381666018233 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 381666018234 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 381666018235 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 381666018236 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666018237 active site 381666018238 phosphorylation site [posttranslational modification] 381666018239 intermolecular recognition site; other site 381666018240 dimerization interface [polypeptide binding]; other site 381666018241 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 381666018242 DNA binding site [nucleotide binding] 381666018243 sensor kinase CusS; Provisional; Region: PRK09835 381666018244 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 381666018245 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 381666018246 dimer interface [polypeptide binding]; other site 381666018247 phosphorylation site [posttranslational modification] 381666018248 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 381666018249 ATP binding site [chemical binding]; other site 381666018250 Mg2+ binding site [ion binding]; other site 381666018251 G-X-G motif; other site 381666018252 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666018253 Helix-turn-helix domains; Region: HTH; cl00088 381666018254 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 381666018255 dimerization interface [polypeptide binding]; other site 381666018256 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 381666018257 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666018258 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 381666018259 sequence-specific DNA binding site [nucleotide binding]; other site 381666018260 salt bridge; other site 381666018261 Cupin domain; Region: Cupin_2; cl09118 381666018262 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 381666018263 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 381666018264 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 381666018265 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 381666018266 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 381666018267 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 381666018268 putative active site [active] 381666018269 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 381666018270 domain_subunit interface; other site 381666018271 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 381666018272 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 381666018273 active site 381666018274 FMN binding site [chemical binding]; other site 381666018275 substrate binding site [chemical binding]; other site 381666018276 3Fe-4S cluster binding site [ion binding]; other site 381666018277 CHASE2 domain; Region: CHASE2; cl01732 381666018278 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 381666018279 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 381666018280 dimer interface [polypeptide binding]; other site 381666018281 phosphorylation site [posttranslational modification] 381666018282 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 381666018283 ATP binding site [chemical binding]; other site 381666018284 Mg2+ binding site [ion binding]; other site 381666018285 G-X-G motif; other site 381666018286 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 381666018287 FecR protein; Region: FecR; pfam04773 381666018288 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 381666018289 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666018290 active site 381666018291 phosphorylation site [posttranslational modification] 381666018292 intermolecular recognition site; other site 381666018293 dimerization interface [polypeptide binding]; other site 381666018294 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 381666018295 DNA binding site [nucleotide binding] 381666018296 Predicted membrane protein [Function unknown]; Region: COG4267 381666018297 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 381666018298 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 381666018299 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 381666018300 GAF domain; Region: GAF; cl15785 381666018301 TolB amino-terminal domain; Region: TolB_N; cl00639 381666018302 Tetratricopeptide repeat; Region: TPR_15; pfam13429 381666018303 TM1410 hypothetical-related protein; Region: DUF297; cl00997 381666018304 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 381666018305 putative active site [active] 381666018306 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 protein; Region: CSP_CDS; cd04458 381666018307 DNA-binding site [nucleotide binding]; DNA binding site 381666018308 RNA-binding motif; other site 381666018309 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 381666018310 catalytic residues [active] 381666018311 substrate binding pocket [chemical binding]; other site 381666018312 substrate-Mg2+ binding site; other site 381666018313 aspartate-rich region 1; other site 381666018314 aspartate-rich region 2; other site 381666018315 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 381666018316 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 381666018317 Active site cavity [active] 381666018318 catalytic acid [active] 381666018319 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 381666018320 putative chaperone; Provisional; Region: PRK11678 381666018321 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666018322 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666018323 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 381666018324 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 381666018325 active site 381666018326 oxalacetate binding site [chemical binding]; other site 381666018327 citrylCoA binding site [chemical binding]; other site 381666018328 coenzyme A binding site [chemical binding]; other site 381666018329 catalytic triad [active] 381666018330 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666018331 metal binding site [ion binding]; metal-binding site 381666018332 active site 381666018333 I-site; other site 381666018334 Transcriptional regulator [Transcription]; Region: IclR; COG1414 381666018335 Helix-turn-helix domains; Region: HTH; cl00088 381666018336 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666018337 Helix-turn-helix domains; Region: HTH; cl00088 381666018338 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 381666018339 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 381666018340 S-adenosylmethionine binding site [chemical binding]; other site 381666018341 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 381666018342 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 381666018343 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 381666018344 Walker A/P-loop; other site 381666018345 ATP binding site [chemical binding]; other site 381666018346 Q-loop/lid; other site 381666018347 ABC transporter signature motif; other site 381666018348 Walker B; other site 381666018349 D-loop; other site 381666018350 H-loop/switch region; other site 381666018351 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 381666018352 NMT1-like family; Region: NMT1_2; cl15260 381666018353 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666018354 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 381666018355 Cytochrome c; Region: Cytochrom_C; cl11414 381666018356 bacterial SoxC is a member of the sulfite oxidase (SO) family of molybdopterin binding domains. SoxC is involved in oxidation of sulfur compounds during chemolithothrophic growth. Together with SoxD, a small c-type heme containing subunit, it forms a...; Region: bact_SoxC_Moco; cd02113 381666018357 Moco binding site; other site 381666018358 metal coordination site [ion binding]; other site 381666018359 dimerization interface [polypeptide binding]; other site 381666018360 NMT1-like family; Region: NMT1_2; cl15260 381666018361 NMT1/THI5 like; Region: NMT1; pfam09084 381666018362 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 381666018363 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 381666018364 ABC-ATPase subunit interface; other site 381666018365 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 381666018366 dimer interface [polypeptide binding]; other site 381666018367 conserved gate region; other site 381666018368 putative PBP binding loops; other site 381666018369 ABC-ATPase subunit interface; other site 381666018370 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666018371 Walker A/P-loop; other site 381666018372 ATP binding site [chemical binding]; other site 381666018373 Q-loop/lid; other site 381666018374 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666018375 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 381666018376 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 381666018377 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 381666018378 active site 381666018379 non-prolyl cis peptide bond; other site 381666018380 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 381666018381 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 381666018382 homodimer interface [polypeptide binding]; other site 381666018383 substrate-cofactor binding pocket; other site 381666018384 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666018385 catalytic residue [active] 381666018386 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 381666018387 NMT1-like family; Region: NMT1_2; cl15260 381666018388 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 381666018389 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 381666018390 tetramer interface [polypeptide binding]; other site 381666018391 TPP-binding site [chemical binding]; other site 381666018392 heterodimer interface [polypeptide binding]; other site 381666018393 phosphorylation loop region [posttranslational modification] 381666018394 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 381666018395 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 381666018396 alpha subunit interface [polypeptide binding]; other site 381666018397 TPP binding site [chemical binding]; other site 381666018398 heterodimer interface [polypeptide binding]; other site 381666018399 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 381666018400 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 381666018401 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 381666018402 E3 interaction surface; other site 381666018403 lipoyl attachment site [posttranslational modification]; other site 381666018404 e3 binding domain; Region: E3_binding; pfam02817 381666018405 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 381666018406 putative transporter; Provisional; Region: PRK11660 381666018407 Sulfate transporter family; Region: Sulfate_transp; cl15842 381666018408 Sulfate transporter family; Region: Sulfate_transp; cl15842 381666018409 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 381666018410 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 381666018411 Ligand Binding Site [chemical binding]; other site 381666018412 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 381666018413 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 381666018414 dimer interface [polypeptide binding]; other site 381666018415 decamer (pentamer of dimers) interface [polypeptide binding]; other site 381666018416 catalytic triad [active] 381666018417 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 381666018418 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 381666018419 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666018420 active site 381666018421 phosphorylation site [posttranslational modification] 381666018422 intermolecular recognition site; other site 381666018423 dimerization interface [polypeptide binding]; other site 381666018424 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 381666018425 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666018426 DNA-binding site [nucleotide binding]; DNA binding site 381666018427 UTRA domain; Region: UTRA; cl01230 381666018428 putative oxidoreductase; Provisional; Region: PRK08275 381666018429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666018430 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 381666018431 Ferredoxin [Energy production and conversion]; Region: COG1146 381666018432 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 381666018433 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 381666018434 NMT1-like family; Region: NMT1_2; cl15260 381666018435 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 381666018436 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 381666018437 putative PBP binding loops; other site 381666018438 dimer interface [polypeptide binding]; other site 381666018439 ABC-ATPase subunit interface; other site 381666018440 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 381666018441 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 381666018442 Walker A/P-loop; other site 381666018443 ATP binding site [chemical binding]; other site 381666018444 Q-loop/lid; other site 381666018445 ABC transporter signature motif; other site 381666018446 Walker B; other site 381666018447 D-loop; other site 381666018448 H-loop/switch region; other site 381666018449 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 381666018450 HEAT repeats; Region: HEAT_2; pfam13646 381666018451 Protein of unknown function (DUF971); Region: DUF971; cl01414 381666018452 Ubiquitin-like proteins; Region: UBQ; cl00155 381666018453 charged pocket; other site 381666018454 hydrophobic patch; other site 381666018455 BNR repeat-like domain; Region: BNR_2; pfam13088 381666018456 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 381666018457 Sulfate transporter family; Region: Sulfate_transp; cl15842 381666018458 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 381666018459 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666018460 H-NS histone family; Region: Histone_HNS; pfam00816 381666018461 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 381666018462 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666018463 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666018464 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666018465 Helix-turn-helix domains; Region: HTH; cl00088 381666018466 transcriptional activator TtdR; Provisional; Region: PRK09801 381666018467 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 381666018468 putative effector binding pocket; other site 381666018469 dimerization interface [polypeptide binding]; other site 381666018470 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666018471 MFS transport protein AraJ; Provisional; Region: PRK10091 381666018472 putative substrate translocation pore; other site 381666018473 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 381666018474 NnrS protein; Region: NnrS; cl01258 381666018475 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 381666018476 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666018477 putative substrate translocation pore; other site 381666018478 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 381666018479 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 381666018480 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 381666018481 [4Fe-4S] binding site [ion binding]; other site 381666018482 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 381666018483 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 381666018484 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 381666018485 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 381666018486 molybdopterin cofactor binding site; other site 381666018487 nitrate reductase, beta subunit; Region: narH; TIGR01660 381666018488 4Fe-4S binding domain; Region: Fer4; cl02805 381666018489 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 381666018490 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 381666018491 PPIC-type PPIASE domain; Region: Rotamase; cl08278 381666018492 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 381666018493 active site clefts [active] 381666018494 zinc binding site [ion binding]; other site 381666018495 dimer interface [polypeptide binding]; other site 381666018496 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 381666018497 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 381666018498 Helix-turn-helix domains; Region: HTH; cl00088 381666018499 transcriptional activator TtdR; Provisional; Region: PRK09801 381666018500 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 381666018501 putative effector binding pocket; other site 381666018502 putative dimerization interface [polypeptide binding]; other site 381666018503 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666018504 NMT1-like family; Region: NMT1_2; cl15260 381666018505 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 381666018506 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 381666018507 substrate binding site [chemical binding]; other site 381666018508 ligand binding site [chemical binding]; other site 381666018509 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 381666018510 substrate binding site [chemical binding]; other site 381666018511 Cytochrome c; Region: Cytochrom_C; cl11414 381666018512 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 381666018513 Cytochrome c; Region: Cytochrom_C; cl11414 381666018514 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 381666018515 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 381666018516 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666018517 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666018518 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 381666018519 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 381666018520 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 381666018521 FeS/SAM binding site; other site 381666018522 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 381666018523 Cytochrome c; Region: Cytochrom_C; cl11414 381666018524 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 381666018525 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 381666018526 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 381666018527 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 381666018528 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666018529 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 381666018530 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 381666018531 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666018532 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; cl12031 381666018533 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 381666018534 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; cl12031 381666018535 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 381666018536 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 381666018537 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 381666018538 tetramer interface [polypeptide binding]; other site 381666018539 active site 381666018540 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 381666018541 heterodimer interface [polypeptide binding]; other site 381666018542 active site 381666018543 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 381666018544 multimer interface [polypeptide binding]; other site 381666018545 heterodimer interface [polypeptide binding]; other site 381666018546 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 381666018547 active site 381666018548 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 381666018549 Helix-turn-helix domains; Region: HTH; cl00088 381666018550 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 381666018551 dimerization interface [polypeptide binding]; other site 381666018552 benzoate transport; Region: 2A0115; TIGR00895 381666018553 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666018554 putative substrate translocation pore; other site 381666018555 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666018556 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 381666018557 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 381666018558 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666018559 dimer interface [polypeptide binding]; other site 381666018560 putative CheW interface [polypeptide binding]; other site 381666018561 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666018562 Helix-turn-helix domains; Region: HTH; cl00088 381666018563 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 381666018564 putative effector binding pocket; other site 381666018565 dimerization interface [polypeptide binding]; other site 381666018566 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 381666018567 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 381666018568 Histidine kinase; Region: HisKA_3; pfam07730 381666018569 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 381666018570 ATP binding site [chemical binding]; other site 381666018571 Mg2+ binding site [ion binding]; other site 381666018572 G-X-G motif; other site 381666018573 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 381666018574 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666018575 active site 381666018576 phosphorylation site [posttranslational modification] 381666018577 intermolecular recognition site; other site 381666018578 dimerization interface [polypeptide binding]; other site 381666018579 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 381666018580 DNA binding residues [nucleotide binding] 381666018581 dimerization interface [polypeptide binding]; other site 381666018582 TolB amino-terminal domain; Region: TolB_N; cl00639 381666018583 Putative periplasmic lipoprotein; Region: DUF1425; cl12345 381666018584 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 381666018585 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 381666018586 BON domain; Region: BON; cl02771 381666018587 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666018588 Helix-turn-helix domains; Region: HTH; cl00088 381666018589 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 381666018590 putative dimerization interface [polypeptide binding]; other site 381666018591 amidase; Provisional; Region: PRK07486 381666018592 Amidase; Region: Amidase; cl11426 381666018593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666018594 NMT1-like family; Region: NMT1_2; cl15260 381666018595 RTX toxin acyltransferase family; Region: HlyC; cl01131 381666018596 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 381666018597 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 381666018598 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666018599 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666018600 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 381666018601 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 381666018602 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666018603 Walker A/P-loop; other site 381666018604 ATP binding site [chemical binding]; other site 381666018605 Q-loop/lid; other site 381666018606 ABC transporter signature motif; other site 381666018607 Walker B; other site 381666018608 D-loop; other site 381666018609 H-loop/switch region; other site 381666018610 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 381666018611 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 381666018612 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666018613 Helix-turn-helix domains; Region: HTH; cl00088 381666018614 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 381666018615 dimerization interface [polypeptide binding]; other site 381666018616 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 381666018617 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 381666018618 homotrimer interaction site [polypeptide binding]; other site 381666018619 putative active site [active] 381666018620 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 381666018621 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 381666018622 DNA binding residues [nucleotide binding] 381666018623 dimer interface [polypeptide binding]; other site 381666018624 [2Fe-2S] cluster binding site [ion binding]; other site 381666018625 Cytochrome c; Region: Cytochrom_C; cl11414 381666018626 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 381666018627 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 381666018628 catalytic residues [active] 381666018629 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 381666018630 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 381666018631 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 381666018632 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 381666018633 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 381666018634 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 381666018635 GAF domain; Region: GAF; cl15785 381666018636 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 381666018637 Walker A motif; other site 381666018638 ATP binding site [chemical binding]; other site 381666018639 Walker B motif; other site 381666018640 arginine finger; other site 381666018641 Helix-turn-helix domains; Region: HTH; cl00088 381666018642 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 381666018643 metal binding site [ion binding]; metal-binding site 381666018644 active site 381666018645 I-site; other site 381666018646 SCP-2 sterol transfer family; Region: SCP2; cl01225 381666018647 Peptidase family U32; Region: Peptidase_U32; cl03113 381666018648 Peptidase family U32; Region: Peptidase_U32; cl03113 381666018649 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 381666018650 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 381666018651 FMN binding site [chemical binding]; other site 381666018652 substrate binding site [chemical binding]; other site 381666018653 putative catalytic residue [active] 381666018654 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 381666018655 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 381666018656 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 381666018657 dimerization interface [polypeptide binding]; other site 381666018658 GAF domain; Region: GAF; cl15785 381666018659 Histidine kinase; Region: HisKA_3; pfam07730 381666018660 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 381666018661 ATP binding site [chemical binding]; other site 381666018662 Mg2+ binding site [ion binding]; other site 381666018663 G-X-G motif; other site 381666018664 transcriptional regulator NarL; Provisional; Region: PRK10651 381666018665 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666018666 active site 381666018667 phosphorylation site [posttranslational modification] 381666018668 intermolecular recognition site; other site 381666018669 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 381666018670 DNA binding residues [nucleotide binding] 381666018671 dimerization interface [polypeptide binding]; other site 381666018672 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 381666018673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4318 381666018674 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 381666018675 short chain dehydrogenase; Provisional; Region: PRK06701 381666018676 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 381666018677 NAD binding site [chemical binding]; other site 381666018678 metal binding site [ion binding]; metal-binding site 381666018679 active site 381666018680 BON domain; Region: BON; cl02771 381666018681 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 381666018682 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 381666018683 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; cl12031 381666018684 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 381666018685 Low affinity iron permease; Region: Iron_permease; cl12096 381666018686 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 381666018687 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 381666018688 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 381666018689 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 381666018690 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666018691 active site 381666018692 phosphorylation site [posttranslational modification] 381666018693 intermolecular recognition site; other site 381666018694 dimerization interface [polypeptide binding]; other site 381666018695 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 381666018696 Walker A motif; other site 381666018697 ATP binding site [chemical binding]; other site 381666018698 Walker B motif; other site 381666018699 arginine finger; other site 381666018700 Helix-turn-helix domains; Region: HTH; cl00088 381666018701 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 381666018702 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 381666018703 Walker A motif; other site 381666018704 ATP binding site [chemical binding]; other site 381666018705 Walker B motif; other site 381666018706 arginine finger; other site 381666018707 Helix-turn-helix domains; Region: HTH; cl00088 381666018708 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 381666018709 PAS domain; Region: PAS_9; pfam13426 381666018710 putative active site [active] 381666018711 heme pocket [chemical binding]; other site 381666018712 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 381666018713 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 381666018714 putative active site [active] 381666018715 heme pocket [chemical binding]; other site 381666018716 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 381666018717 dimer interface [polypeptide binding]; other site 381666018718 phosphorylation site [posttranslational modification] 381666018719 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 381666018720 ATP binding site [chemical binding]; other site 381666018721 Mg2+ binding site [ion binding]; other site 381666018722 G-X-G motif; other site 381666018723 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666018724 Response regulator receiver domain; Region: Response_reg; pfam00072 381666018725 active site 381666018726 phosphorylation site [posttranslational modification] 381666018727 intermolecular recognition site; other site 381666018728 dimerization interface [polypeptide binding]; other site 381666018729 short chain dehydrogenase; Provisional; Region: PRK07109 381666018730 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 381666018731 putative NAD(P) binding site [chemical binding]; other site 381666018732 active site 381666018733 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 381666018734 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 381666018735 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 381666018736 active site 381666018737 DNA binding site [nucleotide binding] 381666018738 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 381666018739 DNA binding site [nucleotide binding] 381666018740 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 381666018741 nucleotide binding site [chemical binding]; other site 381666018742 Response regulator receiver domain; Region: Response_reg; pfam00072 381666018743 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666018744 active site 381666018745 phosphorylation site [posttranslational modification] 381666018746 intermolecular recognition site; other site 381666018747 dimerization interface [polypeptide binding]; other site 381666018748 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 381666018749 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 381666018750 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 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 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666018759 active site 381666018760 phosphorylation site [posttranslational modification] 381666018761 intermolecular recognition site; other site 381666018762 dimerization interface [polypeptide binding]; other site 381666018763 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 381666018764 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 381666018765 putative DNA binding site [nucleotide binding]; other site 381666018766 putative homodimer interface [polypeptide binding]; other site 381666018767 BON domain; Region: BON; cl02771 381666018768 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 381666018769 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 381666018770 flagellin; Validated; Region: PRK06819 381666018771 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 381666018772 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 381666018773 FlaG protein; Region: FlaG; cl00591 381666018774 flagellar capping protein; Reviewed; Region: fliD; PRK08032 381666018775 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 381666018776 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 381666018777 Flagellar protein FliS; Region: FliS; cl00654 381666018778 Flagellar protein FliT; Region: FliT; cl05125 381666018779 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 381666018780 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 381666018781 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 381666018782 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 381666018783 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 381666018784 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 381666018785 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 381666018786 FliG C-terminal domain; Region: FliG_C; pfam01706 381666018787 flagellar assembly protein H; Validated; Region: fliH; PRK05687 381666018788 Flagellar assembly protein FliH; Region: FliH; pfam02108 381666018789 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 381666018790 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 381666018791 Walker A motif/ATP binding site; other site 381666018792 Walker B motif; other site 381666018793 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 381666018794 Flagellar FliJ protein; Region: FliJ; pfam02050 381666018795 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 381666018796 YcfA-like protein; Region: YcfA; cl00752 381666018797 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 381666018798 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 381666018799 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 381666018800 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 381666018801 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 381666018802 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 381666018803 dimer interface [polypeptide binding]; other site 381666018804 pyridoxal 5'-phosphate binding site [chemical binding]; other site 381666018805 catalytic residue [active] 381666018806 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 381666018807 active site 381666018808 DNA binding site [nucleotide binding] 381666018809 Int/Topo IB signature motif; other site 381666018810 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 381666018811 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 381666018812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 381666018813 AAA domain; Region: AAA_25; pfam13481 381666018814 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666018815 Walker A motif; other site 381666018816 ATP binding site [chemical binding]; other site 381666018817 Walker B motif; other site 381666018818 RES domain; Region: RES; cl02411 381666018819 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 381666018820 active site 381666018821 catalytic site [active] 381666018822 substrate binding site [chemical binding]; other site 381666018823 AAA domain; Region: AAA_21; pfam13304 381666018824 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 381666018825 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; cl16911 381666018826 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 381666018827 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 381666018828 Uncharacterized conserved protein [Function unknown]; Region: COG1739 381666018829 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 381666018830 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 381666018831 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 381666018832 catalytic loop [active] 381666018833 iron binding site [ion binding]; other site 381666018834 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; cl12031 381666018835 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 381666018836 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 381666018837 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 381666018838 active site 381666018839 zinc binding site [ion binding]; other site 381666018840 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 381666018841 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 381666018842 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 381666018843 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 381666018844 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 381666018845 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 381666018846 Putative zinc-finger; Region: zf-HC2; cl15806 381666018847 RNA polymerase sigma factor; Provisional; Region: PRK12520 381666018848 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 381666018849 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 381666018850 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 381666018851 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 381666018852 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 381666018853 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 381666018854 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 381666018855 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 381666018856 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 381666018857 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 381666018858 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666018859 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 381666018860 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 381666018861 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666018862 substrate binding pocket [chemical binding]; other site 381666018863 membrane-bound complex binding site; other site 381666018864 hinge residues; other site 381666018865 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 381666018866 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 381666018867 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 381666018868 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 381666018869 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 381666018870 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 381666018871 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 381666018872 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 381666018873 Walker A motif; other site 381666018874 ATP binding site [chemical binding]; other site 381666018875 Walker B motif; other site 381666018876 arginine finger; other site 381666018877 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 381666018878 Walker A motif; other site 381666018879 ATP binding site [chemical binding]; other site 381666018880 Walker B motif; other site 381666018881 arginine finger; other site 381666018882 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 381666018883 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 381666018884 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 381666018885 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 381666018886 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 381666018887 Protein of unknown function (DUF796); Region: DUF796; cl01226 381666018888 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 381666018889 Protein of unknown function (DUF877); Region: DUF877; pfam05943 381666018890 Protein of unknown function (DUF770); Region: DUF770; cl01402 381666018891 transcriptional regulator NarP; Provisional; Region: PRK10403 381666018892 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666018893 active site 381666018894 phosphorylation site [posttranslational modification] 381666018895 intermolecular recognition site; other site 381666018896 dimerization interface [polypeptide binding]; other site 381666018897 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 381666018898 DNA binding residues [nucleotide binding] 381666018899 dimerization interface [polypeptide binding]; other site 381666018900 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666018901 Helix-turn-helix domains; Region: HTH; cl00088 381666018902 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 381666018903 putative dimerization interface [polypeptide binding]; other site 381666018904 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666018905 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666018906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666018907 NMT1-like family; Region: NMT1_2; cl15260 381666018908 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 381666018909 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 381666018910 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 381666018911 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 381666018912 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666018913 NMT1-like family; Region: NMT1_2; cl15260 381666018914 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666018915 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 381666018916 zinc binding site [ion binding]; other site 381666018917 putative ligand binding site [chemical binding]; other site 381666018918 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 381666018919 Methylomonas sp. 4,4'-diapolycopene-dialdehyde dehydrogenase-like; Region: ALDH_DDALDH; cd07099 381666018920 NAD(P) binding site [chemical binding]; other site 381666018921 catalytic residues [active] 381666018922 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 381666018923 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666018924 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 381666018925 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 381666018926 Flavoprotein; Region: Flavoprotein; cl08021 381666018927 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 381666018928 TM-ABC transporter signature motif; other site 381666018929 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 381666018930 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 381666018931 Walker A/P-loop; other site 381666018932 ATP binding site [chemical binding]; other site 381666018933 Q-loop/lid; other site 381666018934 ABC transporter signature motif; other site 381666018935 Walker B; other site 381666018936 D-loop; other site 381666018937 H-loop/switch region; other site 381666018938 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 381666018939 zinc binding site [ion binding]; other site 381666018940 putative ligand binding site [chemical binding]; other site 381666018941 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 381666018942 trimer interface [polypeptide binding]; other site 381666018943 eyelet of channel; other site 381666018944 thiamine pyrophosphate protein; Validated; Region: PRK08199 381666018945 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 381666018946 PYR/PP interface [polypeptide binding]; other site 381666018947 dimer interface [polypeptide binding]; other site 381666018948 TPP binding site [chemical binding]; other site 381666018949 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 381666018950 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 381666018951 TPP-binding site [chemical binding]; other site 381666018952 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 381666018953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666018954 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 381666018955 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 381666018956 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 381666018957 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 381666018958 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666018959 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666018960 DNA-binding site [nucleotide binding]; DNA binding site 381666018961 FCD domain; Region: FCD; cl11656 381666018962 hypothetical protein; Provisional; Region: PRK11171 381666018963 Cupin domain; Region: Cupin_2; cl09118 381666018964 Cupin domain; Region: Cupin_2; cl09118 381666018965 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 381666018966 trimer interface [polypeptide binding]; other site 381666018967 eyelet of channel; other site 381666018968 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 381666018969 Predicted amidohydrolase [General function prediction only]; Region: COG0388 381666018970 multimer interface [polypeptide binding]; other site 381666018971 active site 381666018972 catalytic triad [active] 381666018973 dimer interface [polypeptide binding]; other site 381666018974 allantoicase; Provisional; Region: PRK13257 381666018975 Allantoicase repeat; Region: Allantoicase; pfam03561 381666018976 Allantoicase repeat; Region: Allantoicase; pfam03561 381666018977 Cyclophilin-like; Region: Cyclophil_like; cl00950 381666018978 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666018979 H+ Antiporter protein; Region: 2A0121; TIGR00900 381666018980 putative substrate translocation pore; other site 381666018981 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 381666018982 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666018983 Walker A/P-loop; other site 381666018984 ATP binding site [chemical binding]; other site 381666018985 Q-loop/lid; other site 381666018986 ABC transporter signature motif; other site 381666018987 Walker B; other site 381666018988 D-loop; other site 381666018989 H-loop/switch region; other site 381666018990 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666018991 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 381666018992 Walker A/P-loop; other site 381666018993 ATP binding site [chemical binding]; other site 381666018994 Q-loop/lid; other site 381666018995 ABC transporter signature motif; other site 381666018996 Walker B; other site 381666018997 D-loop; other site 381666018998 H-loop/switch region; other site 381666018999 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 381666019000 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 381666019001 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 381666019002 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 381666019003 dimer interface [polypeptide binding]; other site 381666019004 conserved gate region; other site 381666019005 putative PBP binding loops; other site 381666019006 ABC-ATPase subunit interface; other site 381666019007 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 381666019008 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 381666019009 dimer interface [polypeptide binding]; other site 381666019010 conserved gate region; other site 381666019011 putative PBP binding loops; other site 381666019012 ABC-ATPase subunit interface; other site 381666019013 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 381666019014 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 381666019015 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 381666019016 dimerization interface [polypeptide binding]; other site 381666019017 putative DNA binding site [nucleotide binding]; other site 381666019018 putative Zn2+ binding site [ion binding]; other site 381666019019 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 381666019020 Helix-turn-helix domains; Region: HTH; cl00088 381666019021 LysR family transcriptional regulator; Provisional; Region: PRK14997 381666019022 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 381666019023 putative effector binding pocket; other site 381666019024 dimerization interface [polypeptide binding]; other site 381666019025 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 381666019026 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 381666019027 NAD binding site [chemical binding]; other site 381666019028 catalytic Zn binding site [ion binding]; other site 381666019029 substrate binding site [chemical binding]; other site 381666019030 structural Zn binding site [ion binding]; other site 381666019031 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 381666019032 PLD-like domain; Region: PLDc_2; pfam13091 381666019033 putative active site [active] 381666019034 catalytic site [active] 381666019035 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 381666019036 PLD-like domain; Region: PLDc_2; pfam13091 381666019037 putative active site [active] 381666019038 catalytic site [active] 381666019039 lysine transporter; Provisional; Region: PRK10836 381666019040 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 381666019041 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 381666019042 active site 381666019043 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 381666019044 RelB antitoxin; Region: RelB; cl01171 381666019045 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 381666019046 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 381666019047 N-terminal plug; other site 381666019048 ligand-binding site [chemical binding]; other site 381666019049 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666019050 NMT1-like family; Region: NMT1_2; cl15260 381666019051 enoyl-CoA hydratase; Provisional; Region: PRK06127 381666019052 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 381666019053 substrate binding site [chemical binding]; other site 381666019054 oxyanion hole (OAH) forming residues; other site 381666019055 trimer interface [polypeptide binding]; other site 381666019056 Transcriptional regulators [Transcription]; Region: FadR; COG2186 381666019057 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666019058 DNA-binding site [nucleotide binding]; DNA binding site 381666019059 FCD domain; Region: FCD; cl11656 381666019060 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666019061 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666019062 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 381666019063 Na binding site [ion binding]; other site 381666019064 putative substrate binding site [chemical binding]; other site 381666019065 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 381666019066 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 381666019067 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 381666019068 active site 381666019069 catalytic site [active] 381666019070 tetramer interface [polypeptide binding]; other site 381666019071 Transcriptional regulators [Transcription]; Region: GntR; COG1802 381666019072 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 381666019073 DNA-binding site [nucleotide binding]; DNA binding site 381666019074 FCD domain; Region: FCD; cl11656 381666019075 Cupin domain; Region: Cupin_2; cl09118 381666019076 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 381666019077 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 381666019078 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 381666019079 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 381666019080 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 381666019081 substrate binding pocket [chemical binding]; other site 381666019082 membrane-bound complex binding site; other site 381666019083 hinge residues; other site 381666019084 Domain of unknown function (DUF427); Region: DUF427; cl00998 381666019085 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666019086 NMT1-like family; Region: NMT1_2; cl15260 381666019087 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666019088 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666019089 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 381666019090 active site 381666019091 catalytic residues [active] 381666019092 metal binding site [ion binding]; metal-binding site 381666019093 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666019094 Helix-turn-helix domains; Region: HTH; cl00088 381666019095 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 381666019096 putative dimerization interface [polypeptide binding]; other site 381666019097 short chain dehydrogenase; Provisional; Region: PRK12828 381666019098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666019099 NAD(P) binding site [chemical binding]; other site 381666019100 active site 381666019101 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666019102 Helix-turn-helix domains; Region: HTH; cl00088 381666019103 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 381666019104 substrate binding pocket [chemical binding]; other site 381666019105 dimerization interface [polypeptide binding]; other site 381666019106 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 381666019107 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 381666019108 potential catalytic triad [active] 381666019109 conserved cys residue [active] 381666019110 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 381666019111 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 381666019112 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 381666019113 active site 381666019114 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 381666019115 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 381666019116 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 381666019117 FAD binding domain; Region: FAD_binding_1; pfam00667 381666019118 conserved FAD binding motif [chemical binding]; other site 381666019119 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 381666019120 FAD binding pocket [chemical binding]; other site 381666019121 FAD binding motif [chemical binding]; other site 381666019122 catalytic residues [active] 381666019123 NAD binding pocket [chemical binding]; other site 381666019124 phosphate binding motif [ion binding]; other site 381666019125 beta-alpha-beta structure motif; other site 381666019126 ApbE family; Region: ApbE; cl00643 381666019127 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 381666019128 FlgD Ig-like domain; Region: FlgD_ig; cl15790 381666019129 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 381666019130 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 381666019131 Cache domain; Region: Cache_2; cl07034 381666019132 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 381666019133 dimer interface [polypeptide binding]; other site 381666019134 putative CheW interface [polypeptide binding]; other site 381666019135 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 381666019136 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 381666019137 Transglycosylase; Region: Transgly; cl07896 381666019138 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 381666019139 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 381666019140 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 381666019141 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 381666019142 active site 381666019143 catalytic tetrad [active] 381666019144 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 381666019145 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666019146 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 381666019147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666019148 NAD(P) binding site [chemical binding]; other site 381666019149 active site 381666019150 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 381666019151 transcriptional regulator; Provisional; Region: PRK10632 381666019152 Helix-turn-helix domains; Region: HTH; cl00088 381666019153 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 381666019154 putative effector binding pocket; other site 381666019155 dimerization interface [polypeptide binding]; other site 381666019156 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 381666019157 active site 381666019158 catalytic triad [active] 381666019159 oxyanion hole [active] 381666019160 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 381666019161 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 381666019162 C-terminal domain interface [polypeptide binding]; other site 381666019163 GSH binding site (G-site) [chemical binding]; other site 381666019164 dimer interface [polypeptide binding]; other site 381666019165 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 381666019166 N-terminal domain interface [polypeptide binding]; other site 381666019167 dimer interface [polypeptide binding]; other site 381666019168 substrate binding pocket (H-site) [chemical binding]; other site 381666019169 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 381666019170 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666019171 Helix-turn-helix domains; Region: HTH; cl00088 381666019172 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 381666019173 dimerization interface [polypeptide binding]; other site 381666019174 substrate binding pocket [chemical binding]; other site 381666019175 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 381666019176 homotrimer interaction site [polypeptide binding]; other site 381666019177 putative active site [active] 381666019178 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 381666019179 active site 381666019180 FMN binding site [chemical binding]; other site 381666019181 substrate binding site [chemical binding]; other site 381666019182 putative catalytic residue [active] 381666019183 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666019184 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666019185 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666019186 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 381666019187 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 381666019188 NADP binding site [chemical binding]; other site 381666019189 dimer interface [polypeptide binding]; other site 381666019190 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 381666019191 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 381666019192 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 381666019193 AMP-binding enzyme; Region: AMP-binding; cl15778 381666019194 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 381666019195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666019196 NMT1-like family; Region: NMT1_2; cl15260 381666019197 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 381666019198 catalytic residues [active] 381666019199 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 381666019200 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 381666019201 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 381666019202 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 381666019203 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 381666019204 trimer interface [polypeptide binding]; other site 381666019205 eyelet of channel; other site 381666019206 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; cl12031 381666019207 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 381666019208 benzoate transport; Region: 2A0115; TIGR00895 381666019209 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 381666019210 putative substrate translocation pore; other site 381666019211 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 381666019212 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 381666019213 Ligand Binding Site [chemical binding]; other site 381666019214 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 381666019215 CoA-transferase family III; Region: CoA_transf_3; pfam02515 381666019216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 381666019217 NMT1-like family; Region: NMT1_2; cl15260 381666019218 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 381666019219 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 381666019220 substrate binding site [chemical binding]; other site 381666019221 oxyanion hole (OAH) forming residues; other site 381666019222 trimer interface [polypeptide binding]; other site 381666019223 Transcriptional regulator [Transcription]; Region: LysR; COG0583 381666019224 Helix-turn-helix domains; Region: HTH; cl00088 381666019225 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 381666019226 putative dimerization interface [polypeptide binding]; other site 381666019227 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 381666019228 dimer interface [polypeptide binding]; other site 381666019229 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 381666019230 SlyX; Region: SlyX; cl01090 381666019231 EamA-like transporter family; Region: EamA; cl01037 381666019232 NAD-dependent deacetylase; Provisional; Region: PRK05333 381666019233 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 381666019234 NAD+ binding site [chemical binding]; other site 381666019235 substrate binding site [chemical binding]; other site 381666019236 Zn binding site [ion binding]; other site 381666019237 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 381666019238 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 381666019239 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 381666019240 active site 381666019241 nucleophile elbow; other site 381666019242 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 381666019243 Surface antigen; Region: Bac_surface_Ag; cl03097 381666019244 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 381666019245 Helix-turn-helix domains; Region: HTH; cl00088 381666019246 Bacterial transcriptional regulator; Region: IclR; pfam01614 381666019247 Flagellar regulator YcgR; Region: YcgR; pfam07317 381666019248 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 381666019249 PilZ domain; Region: PilZ; cl01260 381666019250 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 381666019251 Helix-turn-helix domains; Region: HTH; cl00088 381666019252 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 381666019253 dimerization interface [polypeptide binding]; other site 381666019254 LysE type translocator; Region: LysE; cl00565 381666019255 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 381666019256 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 381666019257 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 381666019258 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 381666019259 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 381666019260 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 381666019261 DNA binding site [nucleotide binding] 381666019262 active site 381666019263 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 381666019264 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 381666019265 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 381666019266 AlkA N-terminal domain; Region: AlkA_N; cl05528 381666019267 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 381666019268 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 381666019269 minor groove reading motif; other site 381666019270 helix-hairpin-helix signature motif; other site 381666019271 substrate binding pocket [chemical binding]; other site 381666019272 active site 381666019273 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 381666019274 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 381666019275 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 381666019276 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 381666019277 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 381666019278 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 381666019279 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 381666019280 active site 381666019281 OPT oligopeptide transporter protein; Region: OPT; cl14607 381666019282 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 381666019283 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666019284 Helix-turn-helix domains; Region: HTH; cl00088 381666019285 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 381666019286 hypothetical protein; Provisional; Region: PRK11770 381666019287 Domain of unknown function (DUF307); Region: DUF307; pfam03733 381666019288 Domain of unknown function (DUF307); Region: DUF307; pfam03733 381666019289 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 381666019290 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 381666019291 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 381666019292 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 381666019293 dimer interface [polypeptide binding]; other site 381666019294 phosphorylation site [posttranslational modification] 381666019295 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 381666019296 ATP binding site [chemical binding]; other site 381666019297 Mg2+ binding site [ion binding]; other site 381666019298 G-X-G motif; other site 381666019299 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 381666019300 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 381666019301 active site 381666019302 phosphorylation site [posttranslational modification] 381666019303 intermolecular recognition site; other site 381666019304 dimerization interface [polypeptide binding]; other site 381666019305 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 381666019306 DNA binding site [nucleotide binding] 381666019307 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 381666019308 glucokinase, proteobacterial type; Region: glk; TIGR00749 381666019309 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 381666019310 putative active site [active] 381666019311 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 381666019312 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 381666019313 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 381666019314 Dehydratase family; Region: ILVD_EDD; cl00340 381666019315 6-phosphogluconate dehydratase; Region: edd; TIGR01196 381666019316 mechanosensitive channel MscS; Provisional; Region: PRK10334 381666019317 Conserved TM helix; Region: TM_helix; pfam05552 381666019318 Mechanosensitive ion channel; Region: MS_channel; pfam00924 381666019319 H+ Antiporter protein; Region: 2A0121; TIGR00900 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 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 381666019323 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 381666019324 N-terminal plug; other site 381666019325 ligand-binding site [chemical binding]; other site 381666019326 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 381666019327 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 381666019328 G1 box; other site 381666019329 putative GEF interaction site [polypeptide binding]; other site 381666019330 GTP/Mg2+ binding site [chemical binding]; other site 381666019331 Switch I region; other site 381666019332 G2 box; other site 381666019333 G3 box; other site 381666019334 Switch II region; other site 381666019335 G4 box; other site 381666019336 G5 box; other site 381666019337 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 381666019338 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 381666019339 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 381666019340 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 381666019341 Walker A motif; other site 381666019342 ATP binding site [chemical binding]; other site 381666019343 Walker B motif; other site 381666019344 arginine finger; other site 381666019345 Helix-turn-helix domains; Region: HTH; cl00088 381666019346 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 381666019347 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 protein; Region: CSP_CDS; cd04458 381666019348 DNA-binding site [nucleotide binding]; DNA binding site 381666019349 RNA-binding motif; other site