-- dump date 20140619_014737 -- class Genbank::misc_feature -- table misc_feature_note -- id note 320372000001 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 320372000002 active site 320372000003 catalytic triad [active] 320372000004 oxyanion hole [active] 320372000005 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 320372000006 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 320372000007 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 320372000008 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 320372000009 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 320372000010 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 320372000011 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 320372000012 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 320372000013 FAD binding pocket [chemical binding]; other site 320372000014 FAD binding motif [chemical binding]; other site 320372000015 phosphate binding motif [ion binding]; other site 320372000016 beta-alpha-beta structure motif; other site 320372000017 NAD(p) ribose binding residues [chemical binding]; other site 320372000018 NAD binding pocket [chemical binding]; other site 320372000019 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 320372000020 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 320372000021 catalytic loop [active] 320372000022 iron binding site [ion binding]; other site 320372000023 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 320372000024 Protein of unknown function; Region: DUF3658; pfam12395 320372000025 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372000026 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372000027 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 320372000028 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 320372000029 Coenzyme A binding pocket [chemical binding]; other site 320372000030 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 320372000031 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 320372000032 putative DNA binding site [nucleotide binding]; other site 320372000033 putative Zn2+ binding site [ion binding]; other site 320372000034 AsnC family; Region: AsnC_trans_reg; pfam01037 320372000035 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 320372000036 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 320372000037 dimer interface [polypeptide binding]; other site 320372000038 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 320372000039 active site 320372000040 Fe binding site [ion binding]; other site 320372000041 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 320372000042 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 320372000043 dimer interface [polypeptide binding]; other site 320372000044 PYR/PP interface [polypeptide binding]; other site 320372000045 TPP binding site [chemical binding]; other site 320372000046 substrate binding site [chemical binding]; other site 320372000047 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 320372000048 TPP-binding site; other site 320372000049 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 320372000050 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 320372000051 Malic enzyme, N-terminal domain; Region: malic; pfam00390 320372000052 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 320372000053 putative NAD(P) binding site [chemical binding]; other site 320372000054 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 320372000055 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 320372000056 active site 320372000057 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 320372000058 substrate binding site [chemical binding]; other site 320372000059 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 320372000060 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 320372000061 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 320372000062 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 320372000063 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 320372000064 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 320372000065 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 320372000066 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372000067 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372000068 The 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 320372000069 dimerization interface [polypeptide binding]; other site 320372000070 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 320372000071 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 320372000072 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 320372000073 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 320372000074 Uncharacterized conserved protein [Function unknown]; Region: COG1656 320372000075 Protein of unknown function DUF82; Region: DUF82; pfam01927 320372000076 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 320372000077 Spore germination protein; Region: Spore_permease; cl17796 320372000078 Cytochrome c; Region: Cytochrom_C; cl11414 320372000079 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 320372000080 BON domain; Region: BON; pfam04972 320372000081 BON domain; Region: BON; pfam04972 320372000082 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 320372000083 dimer interface [polypeptide binding]; other site 320372000084 active site 320372000085 hypothetical protein; Provisional; Region: PRK14673 320372000086 Predicted methyltransferases [General function prediction only]; Region: COG0313 320372000087 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 320372000088 putative SAM binding site [chemical binding]; other site 320372000089 putative homodimer interface [polypeptide binding]; other site 320372000090 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 320372000091 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 320372000092 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 320372000093 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 320372000094 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 320372000095 putative DNA binding site [nucleotide binding]; other site 320372000096 putative Zn2+ binding site [ion binding]; other site 320372000097 AsnC family; Region: AsnC_trans_reg; pfam01037 320372000098 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 320372000099 Cation efflux family; Region: Cation_efflux; pfam01545 320372000100 H-NS histone family; Region: Histone_HNS; pfam00816 320372000101 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 320372000102 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 320372000103 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 320372000104 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 320372000105 dimerization interface [polypeptide binding]; other site 320372000106 ligand binding site [chemical binding]; other site 320372000107 Nitronate monooxygenase; Region: NMO; pfam03060 320372000108 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 320372000109 FMN binding site [chemical binding]; other site 320372000110 substrate binding site [chemical binding]; other site 320372000111 putative catalytic residue [active] 320372000112 Dienelactone hydrolase family; Region: DLH; pfam01738 320372000113 amidase; Provisional; Region: PRK07869 320372000114 Amidase; Region: Amidase; cl11426 320372000115 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 320372000116 FAD binding site [chemical binding]; other site 320372000117 Predicted membrane protein [Function unknown]; Region: COG1950 320372000118 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 320372000119 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 320372000120 homotetramer interface [polypeptide binding]; other site 320372000121 ligand binding site [chemical binding]; other site 320372000122 catalytic site [active] 320372000123 NAD binding site [chemical binding]; other site 320372000124 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 320372000125 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 320372000126 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 320372000127 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 320372000128 DNA binding residues [nucleotide binding] 320372000129 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 320372000130 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14722 320372000131 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 320372000132 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 320372000133 FHIPEP family; Region: FHIPEP; pfam00771 320372000134 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 320372000135 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 320372000136 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 320372000137 dimer interface [polypeptide binding]; other site 320372000138 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 320372000139 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 320372000140 chemotaxis regulator CheZ; Provisional; Region: PRK11166 320372000141 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 320372000142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372000143 active site 320372000144 phosphorylation site [posttranslational modification] 320372000145 intermolecular recognition site; other site 320372000146 dimerization interface [polypeptide binding]; other site 320372000147 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 320372000148 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372000149 active site 320372000150 phosphorylation site [posttranslational modification] 320372000151 intermolecular recognition site; other site 320372000152 dimerization interface [polypeptide binding]; other site 320372000153 CheB methylesterase; Region: CheB_methylest; pfam01339 320372000154 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 320372000155 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 320372000156 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 320372000157 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 320372000158 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 320372000159 dimer interface [polypeptide binding]; other site 320372000160 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 320372000161 dimerization interface [polypeptide binding]; other site 320372000162 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 320372000163 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372000164 dimer interface [polypeptide binding]; other site 320372000165 putative CheW interface [polypeptide binding]; other site 320372000166 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 320372000167 putative CheA interaction surface; other site 320372000168 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 320372000169 putative binding surface; other site 320372000170 active site 320372000171 CheY binding; Region: CheY-binding; pfam09078 320372000172 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 320372000173 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372000174 ATP binding site [chemical binding]; other site 320372000175 Mg2+ binding site [ion binding]; other site 320372000176 G-X-G motif; other site 320372000177 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 320372000178 Response regulator receiver domain; Region: Response_reg; pfam00072 320372000179 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372000180 active site 320372000181 phosphorylation site [posttranslational modification] 320372000182 intermolecular recognition site; other site 320372000183 dimerization interface [polypeptide binding]; other site 320372000184 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 320372000185 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 320372000186 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 320372000187 ligand binding site [chemical binding]; other site 320372000188 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 320372000189 flagellar motor protein MotA; Validated; Region: PRK09110 320372000190 transcriptional activator FlhC; Provisional; Region: PRK12722 320372000191 transcriptional activator FlhD; Provisional; Region: PRK02909 320372000192 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372000193 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 320372000194 putative ADP-binding pocket [chemical binding]; other site 320372000195 H-NS histone family; Region: Histone_HNS; pfam00816 320372000196 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 320372000197 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 320372000198 amphipathic channel; other site 320372000199 Asn-Pro-Ala signature motifs; other site 320372000200 putative hydrolase; Provisional; Region: PRK10976 320372000201 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 320372000202 active site 320372000203 motif I; other site 320372000204 motif II; other site 320372000205 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 320372000206 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 320372000207 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 320372000208 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 320372000209 flagellin; Reviewed; Region: PRK08869 320372000210 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 320372000211 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 320372000212 flagellar capping protein; Reviewed; Region: fliD; PRK08032 320372000213 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 320372000214 Tetratricopeptide repeat; Region: TPR_16; pfam13432 320372000215 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 320372000216 TPR motif; other site 320372000217 binding surface 320372000218 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 320372000219 binding surface 320372000220 TPR motif; other site 320372000221 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 320372000222 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 320372000223 TPR motif; other site 320372000224 binding surface 320372000225 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 320372000226 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 320372000227 inhibitor-cofactor binding pocket; inhibition site 320372000228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372000229 catalytic residue [active] 320372000230 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 320372000231 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 320372000232 dimer interface [polypeptide binding]; other site 320372000233 active site 320372000234 CoA binding pocket [chemical binding]; other site 320372000235 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 320372000236 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 320372000237 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 320372000238 dimer interface [polypeptide binding]; other site 320372000239 active site 320372000240 CoA binding pocket [chemical binding]; other site 320372000241 short chain dehydrogenase; Provisional; Region: PRK06500 320372000242 classical (c) SDRs; Region: SDR_c; cd05233 320372000243 NAD(P) binding site [chemical binding]; other site 320372000244 active site 320372000245 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 320372000246 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 320372000247 putative trimer interface [polypeptide binding]; other site 320372000248 putative CoA binding site [chemical binding]; other site 320372000249 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 320372000250 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 320372000251 [2Fe-2S] cluster binding site [ion binding]; other site 320372000252 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 320372000253 alpha subunit interface [polypeptide binding]; other site 320372000254 active site 320372000255 substrate binding site [chemical binding]; other site 320372000256 Fe binding site [ion binding]; other site 320372000257 Methyltransferase domain; Region: Methyltransf_23; pfam13489 320372000258 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 320372000259 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 320372000260 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 320372000261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 320372000262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 320372000263 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 320372000264 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 320372000265 Cache domain; Region: Cache_1; pfam02743 320372000266 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 320372000267 dimerization interface [polypeptide binding]; other site 320372000268 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 320372000269 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372000270 dimer interface [polypeptide binding]; other site 320372000271 putative CheW interface [polypeptide binding]; other site 320372000272 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 320372000273 FAD binding domain; Region: FAD_binding_4; pfam01565 320372000274 Berberine and berberine like; Region: BBE; pfam08031 320372000275 Chitin binding domain; Region: Chitin_bind_3; pfam03067 320372000276 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 320372000277 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 320372000278 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 320372000279 non-specific DNA binding site [nucleotide binding]; other site 320372000280 salt bridge; other site 320372000281 sequence-specific DNA binding site [nucleotide binding]; other site 320372000282 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 320372000283 Cytochrome c; Region: Cytochrom_C; cl11414 320372000284 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 320372000285 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 320372000286 Part of AAA domain; Region: AAA_19; pfam13245 320372000287 Family description; Region: UvrD_C_2; pfam13538 320372000288 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 320372000289 oxyanion hole [active] 320372000290 active site 320372000291 catalytic triad [active] 320372000292 putative oxidoreductase; Provisional; Region: PRK11579 320372000293 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 320372000294 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 320372000295 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 320372000296 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 320372000297 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 320372000298 lipoyl attachment site [posttranslational modification]; other site 320372000299 glycine dehydrogenase; Provisional; Region: PRK05367 320372000300 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 320372000301 tetramer interface [polypeptide binding]; other site 320372000302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372000303 catalytic residue [active] 320372000304 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 320372000305 tetramer interface [polypeptide binding]; other site 320372000306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372000307 catalytic residue [active] 320372000308 Alginate lyase; Region: Alginate_lyase; pfam05426 320372000309 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 320372000310 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 320372000311 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 320372000312 thiamine pyrophosphate protein; Validated; Region: PRK08199 320372000313 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 320372000314 PYR/PP interface [polypeptide binding]; other site 320372000315 dimer interface [polypeptide binding]; other site 320372000316 TPP binding site [chemical binding]; other site 320372000317 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 320372000318 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 320372000319 TPP-binding site [chemical binding]; other site 320372000320 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 320372000321 Helix-turn-helix domain; Region: HTH_18; pfam12833 320372000322 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 320372000323 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 320372000324 NAD(P) binding site [chemical binding]; other site 320372000325 catalytic residues [active] 320372000326 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 320372000327 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 320372000328 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 320372000329 ethanolamine permease; Region: 2A0305; TIGR00908 320372000330 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 320372000331 Acyltransferase family; Region: Acyl_transf_3; pfam01757 320372000332 Conserved TM helix; Region: TM_helix; pfam05552 320372000333 Conserved TM helix; Region: TM_helix; pfam05552 320372000334 Conserved TM helix; Region: TM_helix; pfam05552 320372000335 Double zinc ribbon; Region: DZR; pfam12773 320372000336 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 320372000337 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 320372000338 Soluble P-type ATPase [General function prediction only]; Region: COG4087 320372000339 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 320372000340 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 320372000341 DNA binding residues [nucleotide binding] 320372000342 dimer interface [polypeptide binding]; other site 320372000343 putative metal binding site [ion binding]; other site 320372000344 Predicted transcriptional regulators [Transcription]; Region: COG1695 320372000345 Transcriptional regulator PadR-like family; Region: PadR; cl17335 320372000346 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 320372000347 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 320372000348 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 320372000349 substrate binding pocket [chemical binding]; other site 320372000350 membrane-bound complex binding site; other site 320372000351 hinge residues; other site 320372000352 putative aminotransferase; Provisional; Region: PRK12414 320372000353 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 320372000354 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372000355 homodimer interface [polypeptide binding]; other site 320372000356 catalytic residue [active] 320372000357 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372000358 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372000359 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 320372000360 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 320372000361 active site 320372000362 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 320372000363 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372000364 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 320372000365 acyl-activating enzyme (AAE) consensus motif; other site 320372000366 acyl-activating enzyme (AAE) consensus motif; other site 320372000367 putative AMP binding site [chemical binding]; other site 320372000368 putative active site [active] 320372000369 putative CoA binding site [chemical binding]; other site 320372000370 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 320372000371 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 320372000372 dimerization interface [polypeptide binding]; other site 320372000373 ligand binding site [chemical binding]; other site 320372000374 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 320372000375 Predicted transcriptional regulator [Transcription]; Region: COG3905 320372000376 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 320372000377 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 320372000378 Glutamate binding site [chemical binding]; other site 320372000379 NAD binding site [chemical binding]; other site 320372000380 catalytic residues [active] 320372000381 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 320372000382 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372000383 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 320372000384 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 320372000385 ATP binding site [chemical binding]; other site 320372000386 putative Mg++ binding site [ion binding]; other site 320372000387 nucleotide binding region [chemical binding]; other site 320372000388 helicase superfamily c-terminal domain; Region: HELICc; smart00490 320372000389 ATP-binding site [chemical binding]; other site 320372000390 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 320372000391 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 320372000392 substrate binding site [chemical binding]; other site 320372000393 active site 320372000394 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 320372000395 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 320372000396 substrate binding pocket [chemical binding]; other site 320372000397 membrane-bound complex binding site; other site 320372000398 hinge residues; other site 320372000399 CoA binding domain; Region: CoA_binding; cl17356 320372000400 AMP-binding domain protein; Validated; Region: PRK08315 320372000401 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372000402 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 320372000403 acyl-activating enzyme (AAE) consensus motif; other site 320372000404 putative AMP binding site [chemical binding]; other site 320372000405 putative active site [active] 320372000406 putative CoA binding site [chemical binding]; other site 320372000407 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 320372000408 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 320372000409 gamma subunit interface [polypeptide binding]; other site 320372000410 epsilon subunit interface [polypeptide binding]; other site 320372000411 LBP interface [polypeptide binding]; other site 320372000412 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 320372000413 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 320372000414 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 320372000415 alpha subunit interaction interface [polypeptide binding]; other site 320372000416 Walker A motif; other site 320372000417 ATP binding site [chemical binding]; other site 320372000418 Walker B motif; other site 320372000419 inhibitor binding site; inhibition site 320372000420 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 320372000421 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 320372000422 core domain interface [polypeptide binding]; other site 320372000423 delta subunit interface [polypeptide binding]; other site 320372000424 epsilon subunit interface [polypeptide binding]; other site 320372000425 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 320372000426 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 320372000427 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 320372000428 beta subunit interaction interface [polypeptide binding]; other site 320372000429 Walker A motif; other site 320372000430 ATP binding site [chemical binding]; other site 320372000431 Walker B motif; other site 320372000432 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 320372000433 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 320372000434 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 320372000435 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 320372000436 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 320372000437 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 320372000438 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 320372000439 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 320372000440 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 320372000441 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 320372000442 transmembrane helices; other site 320372000443 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 320372000444 ParB-like nuclease domain; Region: ParBc; pfam02195 320372000445 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 320372000446 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 320372000447 P-loop; other site 320372000448 Magnesium ion binding site [ion binding]; other site 320372000449 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 320372000450 Magnesium ion binding site [ion binding]; other site 320372000451 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 320372000452 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 320372000453 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 320372000454 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 320372000455 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 320372000456 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 320372000457 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 320372000458 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 320372000459 Walker A/P-loop; other site 320372000460 ATP binding site [chemical binding]; other site 320372000461 Q-loop/lid; other site 320372000462 ABC transporter signature motif; other site 320372000463 Walker B; other site 320372000464 D-loop; other site 320372000465 H-loop/switch region; other site 320372000466 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 320372000467 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 320372000468 TM-ABC transporter signature motif; other site 320372000469 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 320372000470 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 320372000471 Walker A/P-loop; other site 320372000472 ATP binding site [chemical binding]; other site 320372000473 Q-loop/lid; other site 320372000474 ABC transporter signature motif; other site 320372000475 Walker B; other site 320372000476 D-loop; other site 320372000477 H-loop/switch region; other site 320372000478 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 320372000479 TM-ABC transporter signature motif; other site 320372000480 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 320372000481 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 320372000482 putative ligand binding site [chemical binding]; other site 320372000483 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 320372000484 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 320372000485 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 320372000486 TM-ABC transporter signature motif; other site 320372000487 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 320372000488 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 320372000489 TM-ABC transporter signature motif; other site 320372000490 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 320372000491 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 320372000492 putative ligand binding site [chemical binding]; other site 320372000493 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 320372000494 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 320372000495 Walker A/P-loop; other site 320372000496 ATP binding site [chemical binding]; other site 320372000497 Q-loop/lid; other site 320372000498 ABC transporter signature motif; other site 320372000499 Walker B; other site 320372000500 D-loop; other site 320372000501 H-loop/switch region; other site 320372000502 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 320372000503 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 320372000504 Walker A/P-loop; other site 320372000505 ATP binding site [chemical binding]; other site 320372000506 Q-loop/lid; other site 320372000507 ABC transporter signature motif; other site 320372000508 Walker B; other site 320372000509 D-loop; other site 320372000510 H-loop/switch region; other site 320372000511 choline dehydrogenase; Validated; Region: PRK02106 320372000512 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 320372000513 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 320372000514 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 320372000515 tetrameric interface [polypeptide binding]; other site 320372000516 NAD binding site [chemical binding]; other site 320372000517 catalytic residues [active] 320372000518 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372000519 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372000520 The 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 320372000521 dimerization interface [polypeptide binding]; other site 320372000522 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 320372000523 putative active site [active] 320372000524 putative metal binding residues [ion binding]; other site 320372000525 signature motif; other site 320372000526 putative triphosphate binding site [ion binding]; other site 320372000527 dimer interface [polypeptide binding]; other site 320372000528 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 320372000529 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 320372000530 putative DNA binding site [nucleotide binding]; other site 320372000531 putative Zn2+ binding site [ion binding]; other site 320372000532 AsnC family; Region: AsnC_trans_reg; pfam01037 320372000533 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 320372000534 cofactor binding site; other site 320372000535 metal binding site [ion binding]; metal-binding site 320372000536 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 320372000537 aromatic arch; other site 320372000538 DCoH dimer interaction site [polypeptide binding]; other site 320372000539 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 320372000540 DCoH tetramer interaction site [polypeptide binding]; other site 320372000541 substrate binding site [chemical binding]; other site 320372000542 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 320372000543 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372000544 active site 320372000545 phosphorylation site [posttranslational modification] 320372000546 intermolecular recognition site; other site 320372000547 dimerization interface [polypeptide binding]; other site 320372000548 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 320372000549 DNA binding site [nucleotide binding] 320372000550 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 320372000551 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 320372000552 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 320372000553 dimer interface [polypeptide binding]; other site 320372000554 phosphorylation site [posttranslational modification] 320372000555 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372000556 ATP binding site [chemical binding]; other site 320372000557 Mg2+ binding site [ion binding]; other site 320372000558 G-X-G motif; other site 320372000559 Proteins containing SET domain [General function prediction only]; Region: COG2940 320372000560 SET domain; Region: SET; pfam00856 320372000561 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 320372000562 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 320372000563 active site 320372000564 FMN binding site [chemical binding]; other site 320372000565 substrate binding site [chemical binding]; other site 320372000566 homotetramer interface [polypeptide binding]; other site 320372000567 catalytic residue [active] 320372000568 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 320372000569 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 320372000570 catalytic triad [active] 320372000571 Transcriptional regulators [Transcription]; Region: MarR; COG1846 320372000572 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 320372000573 putative DNA binding site [nucleotide binding]; other site 320372000574 putative Zn2+ binding site [ion binding]; other site 320372000575 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 320372000576 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 320372000577 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 320372000578 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 320372000579 Uncharacterized conserved protein [Function unknown]; Region: COG4121 320372000580 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 320372000581 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 320372000582 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 320372000583 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 320372000584 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 320372000585 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 320372000586 N-acetyl-D-glucosamine binding site [chemical binding]; other site 320372000587 catalytic residue [active] 320372000588 type II secretion system protein D; Region: type_II_gspD; TIGR02517 320372000589 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 320372000590 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 320372000591 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 320372000592 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 320372000593 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 320372000594 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 320372000595 type II secretion system protein E; Region: type_II_gspE; TIGR02533 320372000596 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 320372000597 Walker A motif; other site 320372000598 ATP binding site [chemical binding]; other site 320372000599 Walker B motif; other site 320372000600 type II secretion system protein F; Region: GspF; TIGR02120 320372000601 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 320372000602 Ceramidase; Region: Ceramidase; pfam05875 320372000603 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 320372000604 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 320372000605 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 320372000606 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 320372000607 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 320372000608 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 320372000609 Type II transport protein GspH; Region: GspH; pfam12019 320372000610 type II secretion system protein I; Region: gspI; TIGR01707 320372000611 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 320372000612 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 320372000613 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 320372000614 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 320372000615 GspL periplasmic domain; Region: GspL_C; pfam12693 320372000616 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 320372000617 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 320372000618 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 320372000619 MarR family; Region: MarR_2; cl17246 320372000620 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 320372000621 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 320372000622 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372000623 putative substrate translocation pore; other site 320372000624 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372000625 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372000626 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372000627 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 320372000628 putative dimerization interface [polypeptide binding]; other site 320372000629 LrgA family; Region: LrgA; pfam03788 320372000630 LrgB-like family; Region: LrgB; cl00596 320372000631 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 320372000632 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 320372000633 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 320372000634 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 320372000635 flagellar motor switch protein; Validated; Region: fliN; PRK05698 320372000636 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 320372000637 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 320372000638 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 320372000639 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 320372000640 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 320372000641 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 320372000642 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 320372000643 DNA binding residues [nucleotide binding] 320372000644 putative dimer interface [polypeptide binding]; other site 320372000645 putative metal binding residues [ion binding]; other site 320372000646 Methyltransferase domain; Region: Methyltransf_31; pfam13847 320372000647 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 320372000648 S-adenosylmethionine binding site [chemical binding]; other site 320372000649 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 320372000650 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 320372000651 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 320372000652 membrane-bound complex binding site; other site 320372000653 hinge residues; other site 320372000654 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 320372000655 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 320372000656 Walker A/P-loop; other site 320372000657 ATP binding site [chemical binding]; other site 320372000658 Q-loop/lid; other site 320372000659 ABC transporter signature motif; other site 320372000660 Walker B; other site 320372000661 D-loop; other site 320372000662 H-loop/switch region; other site 320372000663 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 320372000664 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372000665 dimer interface [polypeptide binding]; other site 320372000666 conserved gate region; other site 320372000667 putative PBP binding loops; other site 320372000668 ABC-ATPase subunit interface; other site 320372000669 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 320372000670 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 320372000671 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 320372000672 dimer interface [polypeptide binding]; other site 320372000673 phosphorylation site [posttranslational modification] 320372000674 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372000675 ATP binding site [chemical binding]; other site 320372000676 Mg2+ binding site [ion binding]; other site 320372000677 G-X-G motif; other site 320372000678 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 320372000679 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372000680 active site 320372000681 phosphorylation site [posttranslational modification] 320372000682 intermolecular recognition site; other site 320372000683 dimerization interface [polypeptide binding]; other site 320372000684 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 320372000685 DNA binding site [nucleotide binding] 320372000686 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372000687 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 320372000688 trimer interface [polypeptide binding]; other site 320372000689 eyelet of channel; other site 320372000690 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 320372000691 DNA methylase; Region: N6_N4_Mtase; pfam01555 320372000692 DNA methylase; Region: N6_N4_Mtase; cl17433 320372000693 Restriction endonuclease [Defense mechanisms]; Region: COG3587 320372000694 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 320372000695 ATP binding site [chemical binding]; other site 320372000696 putative Mg++ binding site [ion binding]; other site 320372000697 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372000698 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 320372000699 trimer interface [polypeptide binding]; other site 320372000700 eyelet of channel; other site 320372000701 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 320372000702 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372000703 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 320372000704 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 320372000705 Walker A/P-loop; other site 320372000706 ATP binding site [chemical binding]; other site 320372000707 Q-loop/lid; other site 320372000708 ABC transporter signature motif; other site 320372000709 Walker B; other site 320372000710 D-loop; other site 320372000711 H-loop/switch region; other site 320372000712 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 320372000713 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372000714 Walker A/P-loop; other site 320372000715 ATP binding site [chemical binding]; other site 320372000716 Q-loop/lid; other site 320372000717 ABC transporter signature motif; other site 320372000718 Walker B; other site 320372000719 D-loop; other site 320372000720 H-loop/switch region; other site 320372000721 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 320372000722 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 320372000723 TM-ABC transporter signature motif; other site 320372000724 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 320372000725 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 320372000726 TM-ABC transporter signature motif; other site 320372000727 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 320372000728 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_7; cd06341 320372000729 putative ligand binding site [chemical binding]; other site 320372000730 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 320372000731 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 320372000732 NAD(P) binding site [chemical binding]; other site 320372000733 catalytic residues [active] 320372000734 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 320372000735 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 320372000736 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 320372000737 classical (c) SDRs; Region: SDR_c; cd05233 320372000738 NAD(P) binding site [chemical binding]; other site 320372000739 active site 320372000740 choline dehydrogenase; Validated; Region: PRK02106 320372000741 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 320372000742 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 320372000743 Predicted transcriptional regulators [Transcription]; Region: COG1695 320372000744 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 320372000745 Predicted membrane protein [Function unknown]; Region: COG4709 320372000746 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 320372000747 Fatty acid desaturase; Region: FA_desaturase; pfam00487 320372000748 putative di-iron ligands [ion binding]; other site 320372000749 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 320372000750 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 320372000751 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 320372000752 conserved cys residue [active] 320372000753 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372000754 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 320372000755 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 320372000756 active site 320372000757 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 320372000758 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 320372000759 dimer interface [polypeptide binding]; other site 320372000760 active site 320372000761 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 320372000762 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 320372000763 substrate binding site [chemical binding]; other site 320372000764 oxyanion hole (OAH) forming residues; other site 320372000765 trimer interface [polypeptide binding]; other site 320372000766 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 320372000767 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 320372000768 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 320372000769 CoA-transferase family III; Region: CoA_transf_3; pfam02515 320372000770 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 320372000771 CHAP domain; Region: CHAP; cl17642 320372000772 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 320372000773 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 320372000774 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 320372000775 DNA binding residues [nucleotide binding] 320372000776 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 320372000777 putative heme binding pocket [chemical binding]; other site 320372000778 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 320372000779 Transposase; Region: HTH_Tnp_1; pfam01527 320372000780 HTH-like domain; Region: HTH_21; pfam13276 320372000781 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 320372000782 Integrase core domain; Region: rve; pfam00665 320372000783 Integrase core domain; Region: rve_3; pfam13683 320372000784 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 320372000785 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372000786 ATP binding site [chemical binding]; other site 320372000787 Mg2+ binding site [ion binding]; other site 320372000788 G-X-G motif; other site 320372000789 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 320372000790 anchoring element; other site 320372000791 dimer interface [polypeptide binding]; other site 320372000792 ATP binding site [chemical binding]; other site 320372000793 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 320372000794 active site 320372000795 putative metal-binding site [ion binding]; other site 320372000796 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 320372000797 DNA polymerase III subunit beta; Validated; Region: PRK05643 320372000798 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 320372000799 putative DNA binding surface [nucleotide binding]; other site 320372000800 dimer interface [polypeptide binding]; other site 320372000801 beta-clamp/clamp loader binding surface; other site 320372000802 beta-clamp/translesion DNA polymerase binding surface; other site 320372000803 DnaA N-terminal domain; Region: DnaA_N; pfam11638 320372000804 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 320372000805 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 320372000806 Walker A motif; other site 320372000807 ATP binding site [chemical binding]; other site 320372000808 Walker B motif; other site 320372000809 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 320372000810 arginine finger; other site 320372000811 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 320372000812 DnaA box-binding interface [nucleotide binding]; other site 320372000813 Ribonuclease P; Region: Ribonuclease_P; cl00457 320372000814 hypothetical protein; Validated; Region: PRK00041 320372000815 membrane protein insertase; Provisional; Region: PRK01318 320372000816 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 320372000817 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 320372000818 sequence-specific DNA binding site [nucleotide binding]; other site 320372000819 salt bridge; other site 320372000820 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 320372000821 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 320372000822 trmE is a tRNA modification GTPase; Region: trmE; cd04164 320372000823 G1 box; other site 320372000824 GTP/Mg2+ binding site [chemical binding]; other site 320372000825 Switch I region; other site 320372000826 G2 box; other site 320372000827 Switch II region; other site 320372000828 G3 box; other site 320372000829 G4 box; other site 320372000830 G5 box; other site 320372000831 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 320372000832 integrase; Provisional; Region: PRK09692 320372000833 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 320372000834 active site 320372000835 Int/Topo IB signature motif; other site 320372000836 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 320372000837 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 320372000838 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 320372000839 active site 320372000840 metal binding site [ion binding]; metal-binding site 320372000841 interdomain interaction site; other site 320372000842 Domain of unknown function (DUF927); Region: DUF927; pfam06048 320372000843 HTH-like domain; Region: HTH_21; pfam13276 320372000844 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 320372000845 Integrase core domain; Region: rve; pfam00665 320372000846 Integrase core domain; Region: rve_3; pfam13683 320372000847 Transposase; Region: HTH_Tnp_1; pfam01527 320372000848 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 320372000849 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 320372000850 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 320372000851 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 320372000852 YaeQ protein; Region: YaeQ; pfam07152 320372000853 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 320372000854 dimer interface [polypeptide binding]; other site 320372000855 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 320372000856 metal binding site [ion binding]; metal-binding site 320372000857 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 320372000858 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 320372000859 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372000860 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372000861 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 320372000862 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 320372000863 DNA binding site [nucleotide binding] 320372000864 active site 320372000865 AlkA N-terminal domain; Region: AlkA_N; pfam06029 320372000866 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 320372000867 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 320372000868 minor groove reading motif; other site 320372000869 helix-hairpin-helix signature motif; other site 320372000870 substrate binding pocket [chemical binding]; other site 320372000871 active site 320372000872 glutamate--cysteine ligase; Provisional; Region: PRK02107 320372000873 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 320372000874 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 320372000875 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 320372000876 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 320372000877 DNA binding residues [nucleotide binding] 320372000878 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 320372000879 dimer interface [polypeptide binding]; other site 320372000880 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372000881 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372000882 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 320372000883 putative effector binding pocket; other site 320372000884 dimerization interface [polypeptide binding]; other site 320372000885 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 320372000886 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 320372000887 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 320372000888 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 320372000889 active site 320372000890 metal binding site [ion binding]; metal-binding site 320372000891 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 320372000892 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 320372000893 putative active site; other site 320372000894 catalytic triad [active] 320372000895 putative dimer interface [polypeptide binding]; other site 320372000896 portal vertex protein; Provisional; Region: Q; PHA02536 320372000897 Phage portal protein; Region: Phage_portal; pfam04860 320372000898 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 320372000899 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 320372000900 CoenzymeA binding site [chemical binding]; other site 320372000901 subunit interaction site [polypeptide binding]; other site 320372000902 PHB binding site; other site 320372000903 Patatin-like phospholipase; Region: Patatin; pfam01734 320372000904 active site 320372000905 nucleophile elbow; other site 320372000906 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 320372000907 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 320372000908 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 320372000909 dimerization interface [polypeptide binding]; other site 320372000910 NAD binding site [chemical binding]; other site 320372000911 ligand binding site [chemical binding]; other site 320372000912 catalytic site [active] 320372000913 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372000914 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372000915 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 320372000916 putative effector binding pocket; other site 320372000917 dimerization interface [polypeptide binding]; other site 320372000918 DNA topoisomerase III; Validated; Region: PRK08173 320372000919 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 320372000920 active site 320372000921 putative interdomain interaction site [polypeptide binding]; other site 320372000922 putative metal-binding site [ion binding]; other site 320372000923 putative nucleotide binding site [chemical binding]; other site 320372000924 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 320372000925 domain I; other site 320372000926 DNA binding groove [nucleotide binding] 320372000927 phosphate binding site [ion binding]; other site 320372000928 domain II; other site 320372000929 domain III; other site 320372000930 nucleotide binding site [chemical binding]; other site 320372000931 catalytic site [active] 320372000932 domain IV; other site 320372000933 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 320372000934 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 320372000935 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 320372000936 catalytic residues [active] 320372000937 DNA protecting protein DprA; Region: dprA; TIGR00732 320372000938 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 320372000939 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 320372000940 active site 320372000941 catalytic residues [active] 320372000942 metal binding site [ion binding]; metal-binding site 320372000943 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 320372000944 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 320372000945 putative active site [active] 320372000946 substrate binding site [chemical binding]; other site 320372000947 putative cosubstrate binding site; other site 320372000948 catalytic site [active] 320372000949 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 320372000950 substrate binding site [chemical binding]; other site 320372000951 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 320372000952 M48 family peptidase; Provisional; Region: PRK03001 320372000953 16S rRNA methyltransferase B; Provisional; Region: PRK10901 320372000954 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 320372000955 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 320372000956 S-adenosylmethionine binding site [chemical binding]; other site 320372000957 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 320372000958 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 320372000959 dimerization interface [polypeptide binding]; other site 320372000960 PAS domain; Region: PAS; smart00091 320372000961 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 320372000962 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 320372000963 dimer interface [polypeptide binding]; other site 320372000964 phosphorylation site [posttranslational modification] 320372000965 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372000966 ATP binding site [chemical binding]; other site 320372000967 Mg2+ binding site [ion binding]; other site 320372000968 G-X-G motif; other site 320372000969 Response regulator receiver domain; Region: Response_reg; pfam00072 320372000970 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372000971 active site 320372000972 phosphorylation site [posttranslational modification] 320372000973 intermolecular recognition site; other site 320372000974 dimerization interface [polypeptide binding]; other site 320372000975 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 320372000976 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 320372000977 Ligand Binding Site [chemical binding]; other site 320372000978 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 320372000979 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 320372000980 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 320372000981 active site 320372000982 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 320372000983 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 320372000984 Sel1 repeat; Region: Sel1; cl02723 320372000985 Sel1-like repeats; Region: SEL1; smart00671 320372000986 Sel1-like repeats; Region: SEL1; smart00671 320372000987 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 320372000988 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 320372000989 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 320372000990 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 320372000991 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 320372000992 rod shape-determining protein MreC; Provisional; Region: PRK13922 320372000993 rod shape-determining protein MreC; Region: MreC; pfam04085 320372000994 rod shape-determining protein MreB; Provisional; Region: PRK13927 320372000995 MreB and similar proteins; Region: MreB_like; cd10225 320372000996 nucleotide binding site [chemical binding]; other site 320372000997 Mg binding site [ion binding]; other site 320372000998 putative protofilament interaction site [polypeptide binding]; other site 320372000999 RodZ interaction site [polypeptide binding]; other site 320372001000 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 320372001001 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 320372001002 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 320372001003 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 320372001004 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 320372001005 GatB domain; Region: GatB_Yqey; smart00845 320372001006 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 320372001007 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 320372001008 putative active site [active] 320372001009 putative catalytic site [active] 320372001010 putative DNA binding site [nucleotide binding]; other site 320372001011 putative phosphate binding site [ion binding]; other site 320372001012 metal binding site A [ion binding]; metal-binding site 320372001013 putative AP binding site [nucleotide binding]; other site 320372001014 putative metal binding site B [ion binding]; other site 320372001015 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 320372001016 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 320372001017 putative NAD(P) binding site [chemical binding]; other site 320372001018 putative substrate binding site [chemical binding]; other site 320372001019 catalytic Zn binding site [ion binding]; other site 320372001020 structural Zn binding site [ion binding]; other site 320372001021 dimer interface [polypeptide binding]; other site 320372001022 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 320372001023 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372001024 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372001025 Peptidase family M48; Region: Peptidase_M48; cl12018 320372001026 muropeptide transporter; Reviewed; Region: ampG; PRK11902 320372001027 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372001028 putative substrate translocation pore; other site 320372001029 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 320372001030 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 320372001031 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 320372001032 division inhibitor protein; Provisional; Region: slmA; PRK09480 320372001033 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372001034 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 320372001035 feedback inhibition sensing region; other site 320372001036 homohexameric interface [polypeptide binding]; other site 320372001037 nucleotide binding site [chemical binding]; other site 320372001038 N-acetyl-L-glutamate binding site [chemical binding]; other site 320372001039 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 320372001040 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 320372001041 dimer interface [polypeptide binding]; other site 320372001042 phosphorylation site [posttranslational modification] 320372001043 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372001044 ATP binding site [chemical binding]; other site 320372001045 Mg2+ binding site [ion binding]; other site 320372001046 G-X-G motif; other site 320372001047 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 320372001048 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372001049 active site 320372001050 phosphorylation site [posttranslational modification] 320372001051 intermolecular recognition site; other site 320372001052 dimerization interface [polypeptide binding]; other site 320372001053 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 320372001054 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 320372001055 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 320372001056 Walker A motif; other site 320372001057 ATP binding site [chemical binding]; other site 320372001058 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 320372001059 Walker B motif; other site 320372001060 arginine finger; other site 320372001061 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 320372001062 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 320372001063 active site 320372001064 HslU subunit interaction site [polypeptide binding]; other site 320372001065 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 320372001066 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 320372001067 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 320372001068 P-loop, Walker A motif; other site 320372001069 Base recognition motif; other site 320372001070 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 320372001071 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 320372001072 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 320372001073 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 320372001074 putative RNA binding site [nucleotide binding]; other site 320372001075 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 320372001076 S-adenosylmethionine binding site [chemical binding]; other site 320372001077 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 320372001078 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 320372001079 active site 320372001080 DNA binding site [nucleotide binding] 320372001081 Int/Topo IB signature motif; other site 320372001082 Protein of unknown function, DUF484; Region: DUF484; cl17449 320372001083 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 320372001084 putative acyl-acceptor binding pocket; other site 320372001085 S-adenosylmethionine synthetase; Validated; Region: PRK05250 320372001086 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 320372001087 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 320372001088 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 320372001089 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 320372001090 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 320372001091 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 320372001092 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 320372001093 active site 320372001094 catalytic tetrad [active] 320372001095 EamA-like transporter family; Region: EamA; pfam00892 320372001096 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372001097 putative substrate translocation pore; other site 320372001098 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 320372001099 serine/threonine protein kinase; Provisional; Region: PRK11768 320372001100 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 320372001101 The 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 320372001102 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 320372001103 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 320372001104 NAD(P) binding site [chemical binding]; other site 320372001105 catalytic residues [active] 320372001106 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 320372001107 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 320372001108 active site 320372001109 choline dehydrogenase; Validated; Region: PRK02106 320372001110 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 320372001111 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 320372001112 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 320372001113 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 320372001114 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 320372001115 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 320372001116 Walker A motif/ATP binding site; other site 320372001117 Walker B motif; other site 320372001118 flagellar assembly protein H; Validated; Region: fliH; PRK05687 320372001119 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 320372001120 Flagellar assembly protein FliH; Region: FliH; pfam02108 320372001121 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 320372001122 FliG C-terminal domain; Region: FliG_C; pfam01706 320372001123 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 320372001124 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 320372001125 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 320372001126 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 320372001127 flagellar protein FliS; Validated; Region: fliS; PRK05685 320372001128 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 320372001129 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 320372001130 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 320372001131 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 320372001132 XdhC Rossmann domain; Region: XdhC_C; pfam13478 320372001133 amino acid transporter; Region: 2A0306; TIGR00909 320372001134 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 320372001135 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 320372001136 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372001137 active site 320372001138 phosphorylation site [posttranslational modification] 320372001139 intermolecular recognition site; other site 320372001140 dimerization interface [polypeptide binding]; other site 320372001141 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 320372001142 DNA binding residues [nucleotide binding] 320372001143 dimerization interface [polypeptide binding]; other site 320372001144 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 320372001145 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 320372001146 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 320372001147 FAD binding pocket [chemical binding]; other site 320372001148 FAD binding motif [chemical binding]; other site 320372001149 phosphate binding motif [ion binding]; other site 320372001150 beta-alpha-beta structure motif; other site 320372001151 NAD binding pocket [chemical binding]; other site 320372001152 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 320372001153 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 320372001154 putative catalytic site [active] 320372001155 putative phosphate binding site [ion binding]; other site 320372001156 putative metal binding site [ion binding]; other site 320372001157 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 320372001158 Walker A motif; other site 320372001159 ATP binding site [chemical binding]; other site 320372001160 Walker B motif; other site 320372001161 arginine finger; other site 320372001162 Predicted dehydrogenase [General function prediction only]; Region: COG0579 320372001163 hydroxyglutarate oxidase; Provisional; Region: PRK11728 320372001164 High potential iron-sulfur protein; Region: HIPIP; pfam01355 320372001165 citrate-proton symporter; Provisional; Region: PRK15075 320372001166 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372001167 putative substrate translocation pore; other site 320372001168 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 320372001169 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 320372001170 peptide binding site [polypeptide binding]; other site 320372001171 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 320372001172 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372001173 dimer interface [polypeptide binding]; other site 320372001174 conserved gate region; other site 320372001175 putative PBP binding loops; other site 320372001176 ABC-ATPase subunit interface; other site 320372001177 dipeptide transporter; Provisional; Region: PRK10913 320372001178 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372001179 dimer interface [polypeptide binding]; other site 320372001180 conserved gate region; other site 320372001181 putative PBP binding loops; other site 320372001182 ABC-ATPase subunit interface; other site 320372001183 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 320372001184 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 320372001185 Walker A/P-loop; other site 320372001186 ATP binding site [chemical binding]; other site 320372001187 Q-loop/lid; other site 320372001188 ABC transporter signature motif; other site 320372001189 Walker B; other site 320372001190 D-loop; other site 320372001191 H-loop/switch region; other site 320372001192 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 320372001193 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 320372001194 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 320372001195 Walker A/P-loop; other site 320372001196 ATP binding site [chemical binding]; other site 320372001197 Q-loop/lid; other site 320372001198 ABC transporter signature motif; other site 320372001199 Walker B; other site 320372001200 D-loop; other site 320372001201 H-loop/switch region; other site 320372001202 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 320372001203 TraB family; Region: TraB; pfam01963 320372001204 Predicted membrane protein [Function unknown]; Region: COG3817 320372001205 Protein of unknown function (DUF979); Region: DUF979; pfam06166 320372001206 Protein of unknown function (DUF969); Region: DUF969; pfam06149 320372001207 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 320372001208 putative active site [active] 320372001209 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 320372001210 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 320372001211 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 320372001212 MarR family; Region: MarR_2; cl17246 320372001213 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 320372001214 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 320372001215 lytic murein transglycosylase; Provisional; Region: PRK11619 320372001216 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 320372001217 N-acetyl-D-glucosamine binding site [chemical binding]; other site 320372001218 catalytic residue [active] 320372001219 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 320372001220 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 320372001221 putative NAD(P) binding site [chemical binding]; other site 320372001222 active site 320372001223 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 320372001224 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 320372001225 putative C-terminal domain interface [polypeptide binding]; other site 320372001226 putative GSH binding site (G-site) [chemical binding]; other site 320372001227 putative dimer interface [polypeptide binding]; other site 320372001228 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 320372001229 putative N-terminal domain interface [polypeptide binding]; other site 320372001230 putative dimer interface [polypeptide binding]; other site 320372001231 putative substrate binding pocket (H-site) [chemical binding]; other site 320372001232 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 320372001233 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 320372001234 active site 320372001235 NTP binding site [chemical binding]; other site 320372001236 metal binding triad [ion binding]; metal-binding site 320372001237 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 320372001238 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 320372001239 Killing trait; Region: RebB; pfam11747 320372001240 FlgN protein; Region: FlgN; pfam05130 320372001241 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 320372001242 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 320372001243 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 320372001244 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 320372001245 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 320372001246 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 320372001247 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 320372001248 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 320372001249 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 320372001250 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 320372001251 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 320372001252 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 320372001253 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 320372001254 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 320372001255 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 320372001256 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 320372001257 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 320372001258 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 320372001259 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 320372001260 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 320372001261 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 320372001262 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12697 320372001263 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 320372001264 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 320372001265 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 320372001266 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 320372001267 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 320372001268 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 320372001269 Flagellar regulator YcgR; Region: YcgR; pfam07317 320372001270 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 320372001271 PilZ domain; Region: PilZ; pfam07238 320372001272 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 320372001273 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 320372001274 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 320372001275 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 320372001276 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 320372001277 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 320372001278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372001279 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 320372001280 dimerization interface [polypeptide binding]; other site 320372001281 substrate binding pocket [chemical binding]; other site 320372001282 Chromate transporter; Region: Chromate_transp; pfam02417 320372001283 Chromate transporter; Region: Chromate_transp; pfam02417 320372001284 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 320372001285 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 320372001286 PhnA protein; Region: PhnA; pfam03831 320372001287 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 320372001288 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372001289 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 320372001290 trimer interface [polypeptide binding]; other site 320372001291 eyelet of channel; other site 320372001292 putative membrane protein; Region: HpnL; TIGR03476 320372001293 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 320372001294 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 320372001295 ligand binding site; other site 320372001296 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 320372001297 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 320372001298 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 320372001299 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 320372001300 Transposase; Region: DDE_Tnp_ISL3; pfam01610 320372001301 glutathione reductase; Validated; Region: PRK06116 320372001302 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 320372001303 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 320372001304 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 320372001305 argininosuccinate synthase; Validated; Region: PRK05370 320372001306 argininosuccinate synthase; Provisional; Region: PRK13820 320372001307 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 320372001308 metal-binding site [ion binding] 320372001309 YHS domain; Region: YHS; pfam04945 320372001310 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 320372001311 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 320372001312 Soluble P-type ATPase [General function prediction only]; Region: COG4087 320372001313 LemA family; Region: LemA; pfam04011 320372001314 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 320372001315 Repair protein; Region: Repair_PSII; pfam04536 320372001316 Repair protein; Region: Repair_PSII; pfam04536 320372001317 HlyD family secretion protein; Region: HlyD_2; pfam12700 320372001318 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372001319 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 320372001320 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 320372001321 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 320372001322 Avidin family; Region: Avidin; pfam01382 320372001323 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 320372001324 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 320372001325 glutaminase active site [active] 320372001326 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 320372001327 dimer interface [polypeptide binding]; other site 320372001328 active site 320372001329 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 320372001330 dimer interface [polypeptide binding]; other site 320372001331 active site 320372001332 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 320372001333 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 320372001334 Substrate binding site; other site 320372001335 Mg++ binding site; other site 320372001336 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 320372001337 active site 320372001338 substrate binding site [chemical binding]; other site 320372001339 CoA binding site [chemical binding]; other site 320372001340 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 320372001341 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 320372001342 Ligand Binding Site [chemical binding]; other site 320372001343 Dihydroneopterin aldolase; Region: FolB; smart00905 320372001344 active site 320372001345 short chain dehydrogenase; Provisional; Region: PRK09134 320372001346 Uncharacterized conserved protein [Function unknown]; Region: COG1565 320372001347 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 320372001348 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 320372001349 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 320372001350 putative substrate binding site [chemical binding]; other site 320372001351 putative ATP binding site [chemical binding]; other site 320372001352 dimerization interface [polypeptide binding]; other site 320372001353 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 320372001354 putative active cleft [active] 320372001355 Transcriptional regulators [Transcription]; Region: PurR; COG1609 320372001356 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 320372001357 DNA binding site [nucleotide binding] 320372001358 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 320372001359 ligand binding site [chemical binding]; other site 320372001360 dimerization interface [polypeptide binding]; other site 320372001361 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 320372001362 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372001363 dimer interface [polypeptide binding]; other site 320372001364 putative CheW interface [polypeptide binding]; other site 320372001365 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 320372001366 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 320372001367 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 320372001368 trimer interface [polypeptide binding]; other site 320372001369 eyelet of channel; other site 320372001370 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372001371 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372001372 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372001373 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 320372001374 putative effector binding pocket; other site 320372001375 dimerization interface [polypeptide binding]; other site 320372001376 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 320372001377 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 320372001378 FMN binding site [chemical binding]; other site 320372001379 substrate binding site [chemical binding]; other site 320372001380 putative catalytic residue [active] 320372001381 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 320372001382 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 320372001383 EamA-like transporter family; Region: EamA; pfam00892 320372001384 EamA-like transporter family; Region: EamA; pfam00892 320372001385 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 320372001386 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 320372001387 dimerization interface [polypeptide binding]; other site 320372001388 putative DNA binding site [nucleotide binding]; other site 320372001389 putative Zn2+ binding site [ion binding]; other site 320372001390 AsnC family; Region: AsnC_trans_reg; pfam01037 320372001391 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 320372001392 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 320372001393 putative deacylase active site [active] 320372001394 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 320372001395 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 320372001396 active site 320372001397 catalytic residues [active] 320372001398 metal binding site [ion binding]; metal-binding site 320372001399 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 320372001400 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 320372001401 putative ligand binding site [chemical binding]; other site 320372001402 NAD binding site [chemical binding]; other site 320372001403 dimerization interface [polypeptide binding]; other site 320372001404 catalytic site [active] 320372001405 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 320372001406 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 320372001407 putative metal binding site [ion binding]; other site 320372001408 Serine hydrolase; Region: Ser_hydrolase; pfam06821 320372001409 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 320372001410 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_20; cd04679 320372001411 nudix motif; other site 320372001412 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 320372001413 Phosphoesterase family; Region: Phosphoesterase; pfam04185 320372001414 Domain of unknown function (DUF756); Region: DUF756; pfam05506 320372001415 Domain of unknown function (DUF756); Region: DUF756; pfam05506 320372001416 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 320372001417 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 320372001418 putative DNA binding site [nucleotide binding]; other site 320372001419 putative Zn2+ binding site [ion binding]; other site 320372001420 AsnC family; Region: AsnC_trans_reg; pfam01037 320372001421 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 320372001422 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 320372001423 Predicted membrane protein [Function unknown]; Region: COG4541 320372001424 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 320372001425 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 320372001426 Cu(I) binding site [ion binding]; other site 320372001427 Glyoxal oxidase N-terminus; Region: Glyoxal_oxid_N; pfam07250 320372001428 Kelch motif; Region: Kelch_6; pfam13964 320372001429 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 320372001430 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 320372001431 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 320372001432 dimer interface [polypeptide binding]; other site 320372001433 active site 320372001434 catalytic residue [active] 320372001435 Inclusion body protein; Region: PixA; pfam12306 320372001436 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 320372001437 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 320372001438 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 320372001439 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 320372001440 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 320372001441 Inward rectifier potassium channel; Region: IRK; pfam01007 320372001442 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 320372001443 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 320372001444 dimer interface [polypeptide binding]; other site 320372001445 PYR/PP interface [polypeptide binding]; other site 320372001446 TPP binding site [chemical binding]; other site 320372001447 substrate binding site [chemical binding]; other site 320372001448 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 320372001449 TPP-binding site [chemical binding]; other site 320372001450 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 320372001451 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 320372001452 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 320372001453 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 320372001454 dimer interface [polypeptide binding]; other site 320372001455 Alkaline phosphatase homologues; Region: alkPPc; smart00098 320372001456 active site 320372001457 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 320372001458 Alkaline phosphatase homologues; Region: alkPPc; smart00098 320372001459 active site 320372001460 dimer interface [polypeptide binding]; other site 320372001461 CutC family; Region: CutC; cl01218 320372001462 biotin synthase; Region: bioB; TIGR00433 320372001463 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 320372001464 FeS/SAM binding site; other site 320372001465 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 320372001466 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 320372001467 AAA domain; Region: AAA_26; pfam13500 320372001468 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 320372001469 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 320372001470 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372001471 catalytic residue [active] 320372001472 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 320372001473 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 320372001474 inhibitor-cofactor binding pocket; inhibition site 320372001475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372001476 catalytic residue [active] 320372001477 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 320372001478 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 320372001479 hypothetical protein; Provisional; Region: PRK01842 320372001480 short chain dehydrogenase; Provisional; Region: PRK06953 320372001481 NAD(P) binding site [chemical binding]; other site 320372001482 active site 320372001483 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 320372001484 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 320372001485 dimer interface [polypeptide binding]; other site 320372001486 active site 320372001487 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 320372001488 active site clefts [active] 320372001489 zinc binding site [ion binding]; other site 320372001490 dimer interface [polypeptide binding]; other site 320372001491 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 320372001492 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 320372001493 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 320372001494 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 320372001495 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372001496 Walker A/P-loop; other site 320372001497 ATP binding site [chemical binding]; other site 320372001498 Q-loop/lid; other site 320372001499 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 320372001500 ABC transporter signature motif; other site 320372001501 Walker B; other site 320372001502 D-loop; other site 320372001503 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 320372001504 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 320372001505 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 320372001506 peptide binding site [polypeptide binding]; other site 320372001507 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 320372001508 MarR family; Region: MarR_2; cl17246 320372001509 short chain dehydrogenase; Validated; Region: PRK08264 320372001510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372001511 NAD(P) binding site [chemical binding]; other site 320372001512 active site 320372001513 short chain dehydrogenase; Provisional; Region: PRK07024 320372001514 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372001515 NAD(P) binding site [chemical binding]; other site 320372001516 active site 320372001517 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 320372001518 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 320372001519 catalytic residues [active] 320372001520 hinge region; other site 320372001521 alpha helical domain; other site 320372001522 Sporulation related domain; Region: SPOR; pfam05036 320372001523 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 320372001524 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 320372001525 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 320372001526 active site 320372001527 HIGH motif; other site 320372001528 KMSK motif region; other site 320372001529 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 320372001530 tRNA binding surface [nucleotide binding]; other site 320372001531 anticodon binding site; other site 320372001532 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 320372001533 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 320372001534 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 320372001535 substrate binding pocket [chemical binding]; other site 320372001536 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 320372001537 B12 binding site [chemical binding]; other site 320372001538 cobalt ligand [ion binding]; other site 320372001539 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 320372001540 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 320372001541 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 320372001542 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 320372001543 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 320372001544 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 320372001545 Transcriptional regulator [Transcription]; Region: IclR; COG1414 320372001546 Bacterial transcriptional regulator; Region: IclR; pfam01614 320372001547 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 320372001548 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 320372001549 enoyl-CoA hydratase; Provisional; Region: PRK07657 320372001550 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 320372001551 substrate binding site [chemical binding]; other site 320372001552 oxyanion hole (OAH) forming residues; other site 320372001553 trimer interface [polypeptide binding]; other site 320372001554 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 320372001555 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 320372001556 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 320372001557 active site 320372001558 nucleophile elbow; other site 320372001559 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 320372001560 dinuclear metal binding motif [ion binding]; other site 320372001561 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 320372001562 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 320372001563 active site 320372001564 HIGH motif; other site 320372001565 nucleotide binding site [chemical binding]; other site 320372001566 biotin--protein ligase; Provisional; Region: PRK06955 320372001567 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 320372001568 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 320372001569 Sel1 repeat; Region: Sel1; cl02723 320372001570 Sel1-like repeats; Region: SEL1; smart00671 320372001571 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 320372001572 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 320372001573 active site 320372001574 metal binding site [ion binding]; metal-binding site 320372001575 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 320372001576 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 320372001577 Permease; Region: Permease; pfam02405 320372001578 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 320372001579 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 320372001580 Walker A/P-loop; other site 320372001581 ATP binding site [chemical binding]; other site 320372001582 Q-loop/lid; other site 320372001583 ABC transporter signature motif; other site 320372001584 Walker B; other site 320372001585 D-loop; other site 320372001586 H-loop/switch region; other site 320372001587 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 320372001588 mce related protein; Region: MCE; pfam02470 320372001589 Protein of unknown function (DUF330); Region: DUF330; pfam03886 320372001590 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 320372001591 dimer interface [polypeptide binding]; other site 320372001592 [2Fe-2S] cluster binding site [ion binding]; other site 320372001593 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 320372001594 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 320372001595 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 320372001596 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 320372001597 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 320372001598 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 320372001599 homodimer interface [polypeptide binding]; other site 320372001600 substrate-cofactor binding pocket; other site 320372001601 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372001602 catalytic residue [active] 320372001603 hypothetical protein; Provisional; Region: PRK02047 320372001604 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 320372001605 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372001606 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 320372001607 dimerization interface [polypeptide binding]; other site 320372001608 substrate binding pocket [chemical binding]; other site 320372001609 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 320372001610 lipoate-protein ligase B; Provisional; Region: PRK14343 320372001611 lipoyl synthase; Provisional; Region: PRK05481 320372001612 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 320372001613 FeS/SAM binding site; other site 320372001614 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 320372001615 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 320372001616 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 320372001617 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372001618 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372001619 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 320372001620 putative effector binding pocket; other site 320372001621 dimerization interface [polypeptide binding]; other site 320372001622 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 320372001623 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 320372001624 substrate binding site [chemical binding]; other site 320372001625 oxyanion hole (OAH) forming residues; other site 320372001626 trimer interface [polypeptide binding]; other site 320372001627 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 320372001628 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 320372001629 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 320372001630 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 320372001631 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 320372001632 FAD binding site [chemical binding]; other site 320372001633 substrate binding site [chemical binding]; other site 320372001634 catalytic base [active] 320372001635 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 320372001636 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 320372001637 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 320372001638 active site 320372001639 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 320372001640 CoA-transferase family III; Region: CoA_transf_3; pfam02515 320372001641 Protein of unknown function, DUF485; Region: DUF485; pfam04341 320372001642 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 320372001643 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 320372001644 Na binding site [ion binding]; other site 320372001645 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 320372001646 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 320372001647 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 320372001648 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 320372001649 dimer interface [polypeptide binding]; other site 320372001650 phosphorylation site [posttranslational modification] 320372001651 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372001652 ATP binding site [chemical binding]; other site 320372001653 Mg2+ binding site [ion binding]; other site 320372001654 G-X-G motif; other site 320372001655 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 320372001656 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372001657 active site 320372001658 phosphorylation site [posttranslational modification] 320372001659 intermolecular recognition site; other site 320372001660 dimerization interface [polypeptide binding]; other site 320372001661 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 320372001662 Walker A motif; other site 320372001663 ATP binding site [chemical binding]; other site 320372001664 Walker B motif; other site 320372001665 arginine finger; other site 320372001666 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 320372001667 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 320372001668 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 320372001669 catalytic residues [active] 320372001670 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 320372001671 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 320372001672 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 320372001673 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 320372001674 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 320372001675 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 320372001676 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 320372001677 Membrane fusogenic activity; Region: BMFP; pfam04380 320372001678 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 320372001679 Nitrogen regulatory protein P-II; Region: P-II; smart00938 320372001680 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 320372001681 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 320372001682 Glutamate-cysteine ligase; Region: GshA; pfam08886 320372001683 glutathione synthetase; Provisional; Region: PRK05246 320372001684 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 320372001685 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 320372001686 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 320372001687 active pocket/dimerization site; other site 320372001688 active site 320372001689 phosphorylation site [posttranslational modification] 320372001690 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 320372001691 dimerization domain swap beta strand [polypeptide binding]; other site 320372001692 regulatory protein interface [polypeptide binding]; other site 320372001693 active site 320372001694 regulatory phosphorylation site [posttranslational modification]; other site 320372001695 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 320372001696 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 320372001697 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 320372001698 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 320372001699 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 320372001700 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 320372001701 ATP binding site [chemical binding]; other site 320372001702 substrate interface [chemical binding]; other site 320372001703 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 320372001704 C-terminal peptidase (prc); Region: prc; TIGR00225 320372001705 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 320372001706 protein binding site [polypeptide binding]; other site 320372001707 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 320372001708 Catalytic dyad [active] 320372001709 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 320372001710 catalytic core [active] 320372001711 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 320372001712 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 320372001713 active site residue [active] 320372001714 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 320372001715 GSH binding site [chemical binding]; other site 320372001716 catalytic residues [active] 320372001717 preprotein translocase subunit SecB; Validated; Region: PRK05751 320372001718 SecA binding site; other site 320372001719 Preprotein binding site; other site 320372001720 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 320372001721 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 320372001722 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 320372001723 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 320372001724 putative ADP-ribose binding site [chemical binding]; other site 320372001725 putative active site [active] 320372001726 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 320372001727 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 320372001728 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 320372001729 active site 320372001730 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 320372001731 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 320372001732 S-adenosylmethionine binding site [chemical binding]; other site 320372001733 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 320372001734 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 320372001735 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 320372001736 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 320372001737 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 320372001738 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 320372001739 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 320372001740 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 320372001741 ligand binding site [chemical binding]; other site 320372001742 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 320372001743 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 320372001744 Subunit I/III interface [polypeptide binding]; other site 320372001745 D-pathway; other site 320372001746 Subunit I/VIIc interface [polypeptide binding]; other site 320372001747 Subunit I/IV interface [polypeptide binding]; other site 320372001748 Subunit I/II interface [polypeptide binding]; other site 320372001749 Low-spin heme (heme a) binding site [chemical binding]; other site 320372001750 Subunit I/VIIa interface [polypeptide binding]; other site 320372001751 Subunit I/VIa interface [polypeptide binding]; other site 320372001752 Dimer interface; other site 320372001753 Putative water exit pathway; other site 320372001754 Binuclear center (heme a3/CuB) [ion binding]; other site 320372001755 K-pathway; other site 320372001756 Subunit I/Vb interface [polypeptide binding]; other site 320372001757 Putative proton exit pathway; other site 320372001758 Subunit I/VIb interface; other site 320372001759 Subunit I/VIc interface [polypeptide binding]; other site 320372001760 Electron transfer pathway; other site 320372001761 Subunit I/VIIIb interface [polypeptide binding]; other site 320372001762 Subunit I/VIIb interface [polypeptide binding]; other site 320372001763 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 320372001764 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 320372001765 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 320372001766 Subunit III/VIIa interface [polypeptide binding]; other site 320372001767 Phospholipid binding site [chemical binding]; other site 320372001768 Subunit I/III interface [polypeptide binding]; other site 320372001769 Subunit III/VIb interface [polypeptide binding]; other site 320372001770 Subunit III/VIa interface; other site 320372001771 Subunit III/Vb interface [polypeptide binding]; other site 320372001772 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 320372001773 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 320372001774 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 320372001775 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 320372001776 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 320372001777 UbiA prenyltransferase family; Region: UbiA; pfam01040 320372001778 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 320372001779 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 320372001780 Cu(I) binding site [ion binding]; other site 320372001781 YCII-related domain; Region: YCII; cl00999 320372001782 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 320372001783 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 320372001784 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 320372001785 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372001786 dimer interface [polypeptide binding]; other site 320372001787 putative CheW interface [polypeptide binding]; other site 320372001788 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 320372001789 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 320372001790 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 320372001791 zinc binding site [ion binding]; other site 320372001792 putative ligand binding site [chemical binding]; other site 320372001793 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 320372001794 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 320372001795 TM-ABC transporter signature motif; other site 320372001796 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 320372001797 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372001798 Walker A/P-loop; other site 320372001799 ATP binding site [chemical binding]; other site 320372001800 Q-loop/lid; other site 320372001801 ABC transporter signature motif; other site 320372001802 Walker B; other site 320372001803 D-loop; other site 320372001804 H-loop/switch region; other site 320372001805 DNA Polymerase Y-family; Region: PolY_like; cd03468 320372001806 active site 320372001807 DNA binding site [nucleotide binding] 320372001808 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 320372001809 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 320372001810 putative active site [active] 320372001811 putative PHP Thumb interface [polypeptide binding]; other site 320372001812 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 320372001813 generic binding surface II; other site 320372001814 generic binding surface I; other site 320372001815 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 320372001816 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 320372001817 Fatty acid desaturase; Region: FA_desaturase; pfam00487 320372001818 putative di-iron ligands [ion binding]; other site 320372001819 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 320372001820 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 320372001821 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 320372001822 inhibitor-cofactor binding pocket; inhibition site 320372001823 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372001824 catalytic residue [active] 320372001825 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 320372001826 ABC-2 type transporter; Region: ABC2_membrane; cl17235 320372001827 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 320372001828 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372001829 Walker A/P-loop; other site 320372001830 ATP binding site [chemical binding]; other site 320372001831 Q-loop/lid; other site 320372001832 ABC transporter signature motif; other site 320372001833 Walker B; other site 320372001834 D-loop; other site 320372001835 H-loop/switch region; other site 320372001836 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 320372001837 Methyltransferase domain; Region: Methyltransf_31; pfam13847 320372001838 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 320372001839 S-adenosylmethionine binding site [chemical binding]; other site 320372001840 Citrate synthase; Region: Citrate_synt; pfam00285 320372001841 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 320372001842 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 320372001843 citrylCoA binding site [chemical binding]; other site 320372001844 oxalacetate binding site [chemical binding]; other site 320372001845 coenzyme A binding site [chemical binding]; other site 320372001846 catalytic triad [active] 320372001847 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 320372001848 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 320372001849 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 320372001850 active site 320372001851 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 320372001852 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 320372001853 active site 320372001854 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 320372001855 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372001856 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372001857 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372001858 acyl-activating enzyme (AAE) consensus motif; other site 320372001859 acyl-activating enzyme (AAE) consensus motif; other site 320372001860 AMP binding site [chemical binding]; other site 320372001861 active site 320372001862 CoA binding site [chemical binding]; other site 320372001863 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Ornithine and Diaminopimelate Decarboxylases, and Related Enzymes; Region: PLPDE_III_ODC_DapDC_like; cd06810 320372001864 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 320372001865 dimer interface [polypeptide binding]; other site 320372001866 active site 320372001867 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 320372001868 catalytic residues [active] 320372001869 substrate binding site [chemical binding]; other site 320372001870 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 320372001871 active site 320372001872 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 320372001873 dinuclear metal binding motif [ion binding]; other site 320372001874 Phosphopantetheine attachment site; Region: PP-binding; cl09936 320372001875 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 320372001876 acyl-CoA synthetase; Validated; Region: PRK09192 320372001877 acyl-activating enzyme (AAE) consensus motif; other site 320372001878 active site 320372001879 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 320372001880 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372001881 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 320372001882 dimerization interface [polypeptide binding]; other site 320372001883 substrate binding pocket [chemical binding]; other site 320372001884 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 320372001885 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 320372001886 active site 320372001887 dimer interface [polypeptide binding]; other site 320372001888 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 320372001889 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372001890 DNA-binding site [nucleotide binding]; DNA binding site 320372001891 UTRA domain; Region: UTRA; pfam07702 320372001892 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 320372001893 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 320372001894 dimer interface [polypeptide binding]; other site 320372001895 active site 320372001896 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 320372001897 dimer interface [polypeptide binding]; other site 320372001898 active site 320372001899 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 320372001900 HPr interaction site; other site 320372001901 glycerol kinase (GK) interaction site [polypeptide binding]; other site 320372001902 active site 320372001903 phosphorylation site [posttranslational modification] 320372001904 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 320372001905 dimerization domain swap beta strand [polypeptide binding]; other site 320372001906 regulatory protein interface [polypeptide binding]; other site 320372001907 active site 320372001908 regulatory phosphorylation site [posttranslational modification]; other site 320372001909 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 320372001910 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 320372001911 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 320372001912 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 320372001913 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 320372001914 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 320372001915 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 320372001916 active site turn [active] 320372001917 phosphorylation site [posttranslational modification] 320372001918 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 320372001919 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 320372001920 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 320372001921 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 320372001922 active site 320372001923 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 320372001924 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 320372001925 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 320372001926 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 320372001927 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 320372001928 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 320372001929 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 320372001930 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 320372001931 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 320372001932 DNA binding residues [nucleotide binding] 320372001933 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 320372001934 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 320372001935 SnoaL-like domain; Region: SnoaL_3; pfam13474 320372001936 2-isopropylmalate synthase; Validated; Region: PRK03739 320372001937 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 320372001938 active site 320372001939 catalytic residues [active] 320372001940 metal binding site [ion binding]; metal-binding site 320372001941 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 320372001942 Coenzyme A binding pocket [chemical binding]; other site 320372001943 glycosyl transferase family protein; Provisional; Region: PRK08136 320372001944 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 320372001945 Molybdopterin oxidoreductase Fe4S4 domain; Region: Molybdop_Fe4S4; smart00926 320372001946 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 320372001947 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 320372001948 molybdopterin cofactor binding site; other site 320372001949 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 320372001950 molybdopterin cofactor binding site; other site 320372001951 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 320372001952 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 320372001953 [2Fe-2S] cluster binding site [ion binding]; other site 320372001954 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 320372001955 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 320372001956 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 320372001957 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 320372001958 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 320372001959 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 320372001960 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 320372001961 C-terminal domain interface [polypeptide binding]; other site 320372001962 GSH binding site (G-site) [chemical binding]; other site 320372001963 putative dimer interface [polypeptide binding]; other site 320372001964 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 320372001965 dimer interface [polypeptide binding]; other site 320372001966 N-terminal domain interface [polypeptide binding]; other site 320372001967 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 320372001968 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 320372001969 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 320372001970 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 320372001971 P loop; other site 320372001972 GTP binding site [chemical binding]; other site 320372001973 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 320372001974 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 320372001975 S-adenosylmethionine binding site [chemical binding]; other site 320372001976 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 320372001977 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 320372001978 active site 320372001979 (T/H)XGH motif; other site 320372001980 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 320372001981 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 320372001982 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 320372001983 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372001984 homodimer interface [polypeptide binding]; other site 320372001985 catalytic residue [active] 320372001986 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 320372001987 putative active site [active] 320372001988 catalytic residue [active] 320372001989 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 320372001990 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 320372001991 5S rRNA interface [nucleotide binding]; other site 320372001992 CTC domain interface [polypeptide binding]; other site 320372001993 L16 interface [polypeptide binding]; other site 320372001994 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 320372001995 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 320372001996 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 320372001997 active site 320372001998 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 320372001999 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 320372002000 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 320372002001 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 320372002002 binding surface 320372002003 TPR motif; other site 320372002004 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 320372002005 binding surface 320372002006 TPR motif; other site 320372002007 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 320372002008 binding surface 320372002009 TPR motif; other site 320372002010 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 320372002011 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 320372002012 DNA binding site [nucleotide binding] 320372002013 catalytic residue [active] 320372002014 H2TH interface [polypeptide binding]; other site 320372002015 putative catalytic residues [active] 320372002016 turnover-facilitating residue; other site 320372002017 intercalation triad [nucleotide binding]; other site 320372002018 8OG recognition residue [nucleotide binding]; other site 320372002019 putative reading head residues; other site 320372002020 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 320372002021 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 320372002022 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 320372002023 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 320372002024 minor groove reading motif; other site 320372002025 helix-hairpin-helix signature motif; other site 320372002026 active site 320372002027 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 320372002028 DNA binding and oxoG recognition site [nucleotide binding] 320372002029 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 320372002030 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 320372002031 HPr kinase/phosphorylase; Provisional; Region: PRK05428 320372002032 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 320372002033 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 320372002034 Hpr binding site; other site 320372002035 active site 320372002036 homohexamer subunit interaction site [polypeptide binding]; other site 320372002037 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 320372002038 active site 320372002039 phosphorylation site [posttranslational modification] 320372002040 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 320372002041 30S subunit binding site; other site 320372002042 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 320372002043 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 320372002044 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 320372002045 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 320372002046 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 320372002047 Walker A/P-loop; other site 320372002048 ATP binding site [chemical binding]; other site 320372002049 Q-loop/lid; other site 320372002050 ABC transporter signature motif; other site 320372002051 Walker B; other site 320372002052 D-loop; other site 320372002053 H-loop/switch region; other site 320372002054 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 320372002055 OstA-like protein; Region: OstA; pfam03968 320372002056 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 320372002057 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 320372002058 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 320372002059 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 320372002060 active site 320372002061 motif I; other site 320372002062 motif II; other site 320372002063 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 320372002064 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 320372002065 putative active site [active] 320372002066 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 320372002067 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 320372002068 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 320372002069 TrkA-N domain; Region: TrkA_N; pfam02254 320372002070 TrkA-C domain; Region: TrkA_C; pfam02080 320372002071 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 320372002072 active site 320372002073 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 320372002074 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 320372002075 nudix motif; other site 320372002076 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 320372002077 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 320372002078 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 320372002079 putative active site [active] 320372002080 putative substrate binding site [chemical binding]; other site 320372002081 putative cosubstrate binding site; other site 320372002082 catalytic site [active] 320372002083 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 320372002084 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 320372002085 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 320372002086 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 320372002087 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 320372002088 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372002089 Major Facilitator Superfamily; Region: MFS_1; pfam07690 320372002090 putative substrate translocation pore; other site 320372002091 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 320372002092 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 320372002093 dimer interface [polypeptide binding]; other site 320372002094 ssDNA binding site [nucleotide binding]; other site 320372002095 tetramer (dimer of dimers) interface [polypeptide binding]; other site 320372002096 Transposase; Region: HTH_Tnp_1; pfam01527 320372002097 HTH-like domain; Region: HTH_21; pfam13276 320372002098 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 320372002099 Integrase core domain; Region: rve; pfam00665 320372002100 Integrase core domain; Region: rve_3; pfam13683 320372002101 Transposase; Region: HTH_Tnp_1; pfam01527 320372002102 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 320372002103 HTH-like domain; Region: HTH_21; pfam13276 320372002104 Integrase core domain; Region: rve; pfam00665 320372002105 Integrase core domain; Region: rve_3; pfam13683 320372002106 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 320372002107 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 320372002108 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 320372002109 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 320372002110 Family description; Region: VCBS; pfam13517 320372002111 Family description; Region: VCBS; pfam13517 320372002112 Family description; Region: VCBS; pfam13517 320372002113 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 320372002114 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 320372002115 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 320372002116 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 320372002117 Tetratricopeptide repeat; Region: TPR_12; pfam13424 320372002118 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 320372002119 phosphopeptide binding site; other site 320372002120 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 320372002121 active site 320372002122 ATP binding site [chemical binding]; other site 320372002123 substrate binding site [chemical binding]; other site 320372002124 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 320372002125 activation loop (A-loop); other site 320372002126 cyclase homology domain; Region: CHD; cd07302 320372002127 dimer interface [polypeptide binding]; other site 320372002128 nucleotidyl binding site; other site 320372002129 metal binding site [ion binding]; metal-binding site 320372002130 AAA ATPase domain; Region: AAA_16; pfam13191 320372002131 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 320372002132 YcaO-like family; Region: YcaO; pfam02624 320372002133 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 320372002134 aldolase II superfamily protein; Provisional; Region: PRK07044 320372002135 intersubunit interface [polypeptide binding]; other site 320372002136 active site 320372002137 Zn2+ binding site [ion binding]; other site 320372002138 PAS domain; Region: PAS; smart00091 320372002139 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 320372002140 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 320372002141 metal binding site [ion binding]; metal-binding site 320372002142 active site 320372002143 I-site; other site 320372002144 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 320372002145 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 320372002146 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 320372002147 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 320372002148 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372002149 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 320372002150 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 320372002151 Substrate binding site; other site 320372002152 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 320372002153 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 320372002154 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372002155 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 320372002156 putative ADP-binding pocket [chemical binding]; other site 320372002157 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 320372002158 active site 320372002159 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 320372002160 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 320372002161 Walker A motif; other site 320372002162 ATP binding site [chemical binding]; other site 320372002163 Walker B motif; other site 320372002164 arginine finger; other site 320372002165 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 320372002166 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 320372002167 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 320372002168 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 320372002169 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 320372002170 dimer interface [polypeptide binding]; other site 320372002171 motif 1; other site 320372002172 active site 320372002173 motif 2; other site 320372002174 motif 3; other site 320372002175 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 320372002176 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 320372002177 active site 320372002178 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 320372002179 active site 320372002180 acyl carrier protein; Provisional; Region: PRK07081 320372002181 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 320372002182 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 320372002183 ligand binding site [chemical binding]; other site 320372002184 flexible hinge region; other site 320372002185 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 320372002186 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 320372002187 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 320372002188 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 320372002189 non-specific DNA interactions [nucleotide binding]; other site 320372002190 DNA binding site [nucleotide binding] 320372002191 sequence specific DNA binding site [nucleotide binding]; other site 320372002192 putative cAMP binding site [chemical binding]; other site 320372002193 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 320372002194 Bacterial sugar transferase; Region: Bac_transf; pfam02397 320372002195 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 320372002196 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 320372002197 SLBB domain; Region: SLBB; pfam10531 320372002198 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 320372002199 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 320372002200 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372002201 CHRD domain; Region: CHRD; pfam07452 320372002202 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 320372002203 EcsC protein family; Region: EcsC; pfam12787 320372002204 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372002205 Major Facilitator Superfamily; Region: MFS_1; pfam07690 320372002206 putative substrate translocation pore; other site 320372002207 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372002208 Transcriptional regulators [Transcription]; Region: MarR; COG1846 320372002209 MarR family; Region: MarR; pfam01047 320372002210 MarR family; Region: MarR_2; cl17246 320372002211 intracellular protease, PfpI family; Region: PfpI; TIGR01382 320372002212 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 320372002213 conserved cys residue [active] 320372002214 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 320372002215 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 320372002216 dimer interface [polypeptide binding]; other site 320372002217 active site 320372002218 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 320372002219 substrate binding site [chemical binding]; other site 320372002220 catalytic residue [active] 320372002221 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 320372002222 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 320372002223 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 320372002224 putative active site [active] 320372002225 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 320372002226 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 320372002227 active site 320372002228 putative substrate binding pocket [chemical binding]; other site 320372002229 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 320372002230 homotrimer interaction site [polypeptide binding]; other site 320372002231 putative active site [active] 320372002232 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 320372002233 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 320372002234 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 320372002235 threonine dehydratase; Reviewed; Region: PRK09224 320372002236 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 320372002237 tetramer interface [polypeptide binding]; other site 320372002238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372002239 catalytic residue [active] 320372002240 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 320372002241 putative Ile/Val binding site [chemical binding]; other site 320372002242 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 320372002243 putative Ile/Val binding site [chemical binding]; other site 320372002244 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 320372002245 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 320372002246 FAD binding domain; Region: FAD_binding_4; pfam01565 320372002247 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 320372002248 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 320372002249 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 320372002250 Cysteine-rich domain; Region: CCG; pfam02754 320372002251 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 320372002252 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 320372002253 nucleotide binding site/active site [active] 320372002254 HIT family signature motif; other site 320372002255 catalytic residue [active] 320372002256 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 320372002257 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 320372002258 S-adenosylmethionine binding site [chemical binding]; other site 320372002259 Tim44-like domain; Region: Tim44; pfam04280 320372002260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 320372002261 SCP-2 sterol transfer family; Region: SCP2; pfam02036 320372002262 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 320372002263 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 320372002264 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 320372002265 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 320372002266 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 320372002267 Uncharacterized conserved protein [Function unknown]; Region: COG2928 320372002268 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 320372002269 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 320372002270 dimer interface [polypeptide binding]; other site 320372002271 anticodon binding site; other site 320372002272 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 320372002273 homodimer interface [polypeptide binding]; other site 320372002274 motif 1; other site 320372002275 active site 320372002276 motif 2; other site 320372002277 GAD domain; Region: GAD; pfam02938 320372002278 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 320372002279 motif 3; other site 320372002280 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 320372002281 nudix motif; other site 320372002282 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 320372002283 PLD-like domain; Region: PLDc_2; pfam13091 320372002284 putative active site [active] 320372002285 catalytic site [active] 320372002286 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 320372002287 PLD-like domain; Region: PLDc_2; pfam13091 320372002288 putative active site [active] 320372002289 catalytic site [active] 320372002290 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372002291 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372002292 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 320372002293 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 320372002294 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 320372002295 FAD binding site [chemical binding]; other site 320372002296 substrate binding site [chemical binding]; other site 320372002297 catalytic residues [active] 320372002298 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 320372002299 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 320372002300 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 320372002301 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 320372002302 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 320372002303 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 320372002304 substrate binding site [chemical binding]; other site 320372002305 oxyanion hole (OAH) forming residues; other site 320372002306 trimer interface [polypeptide binding]; other site 320372002307 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 320372002308 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 320372002309 dimer interface [polypeptide binding]; other site 320372002310 active site 320372002311 enoyl-CoA hydratase; Provisional; Region: PRK06688 320372002312 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 320372002313 substrate binding site [chemical binding]; other site 320372002314 oxyanion hole (OAH) forming residues; other site 320372002315 trimer interface [polypeptide binding]; other site 320372002316 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 320372002317 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 320372002318 conserved hypothetical protein; Region: nitr_red_assoc; TIGR02664 320372002319 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 320372002320 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 320372002321 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 320372002322 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372002323 Walker A/P-loop; other site 320372002324 ATP binding site [chemical binding]; other site 320372002325 Q-loop/lid; other site 320372002326 ABC transporter signature motif; other site 320372002327 Walker B; other site 320372002328 D-loop; other site 320372002329 H-loop/switch region; other site 320372002330 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 320372002331 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 320372002332 Substrate binding site; other site 320372002333 metal-binding site 320372002334 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 320372002335 Phosphotransferase enzyme family; Region: APH; pfam01636 320372002336 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 320372002337 Organic solvent tolerance protein; Region: OstA_C; pfam04453 320372002338 SurA N-terminal domain; Region: SurA_N; pfam09312 320372002339 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 320372002340 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 320372002341 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 320372002342 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 320372002343 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 320372002344 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 320372002345 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 320372002346 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 320372002347 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 320372002348 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 320372002349 dimer interface [polypeptide binding]; other site 320372002350 active site 320372002351 metal binding site [ion binding]; metal-binding site 320372002352 glutathione binding site [chemical binding]; other site 320372002353 Protein of unknown function DUF45; Region: DUF45; pfam01863 320372002354 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 320372002355 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 320372002356 putative acyl-acceptor binding pocket; other site 320372002357 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 320372002358 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 320372002359 active site 320372002360 motif I; other site 320372002361 motif II; other site 320372002362 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 320372002363 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 320372002364 dimer interface [polypeptide binding]; other site 320372002365 motif 1; other site 320372002366 active site 320372002367 motif 2; other site 320372002368 motif 3; other site 320372002369 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 320372002370 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 320372002371 putative active site [active] 320372002372 catalytic triad [active] 320372002373 putative dimer interface [polypeptide binding]; other site 320372002374 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 320372002375 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 320372002376 Transporter associated domain; Region: CorC_HlyC; smart01091 320372002377 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 320372002378 putative active site pocket [active] 320372002379 dimerization interface [polypeptide binding]; other site 320372002380 putative catalytic residue [active] 320372002381 unkown domain/putative metalloprotease fusion protein; Provisional; Region: PRK13963 320372002382 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 320372002383 PhoH-like protein; Region: PhoH; pfam02562 320372002384 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 320372002385 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 320372002386 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 320372002387 FeS/SAM binding site; other site 320372002388 TRAM domain; Region: TRAM; pfam01938 320372002389 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372002390 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372002391 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 320372002392 putative effector binding pocket; other site 320372002393 dimerization interface [polypeptide binding]; other site 320372002394 MFS transport protein AraJ; Provisional; Region: PRK10091 320372002395 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372002396 putative substrate translocation pore; other site 320372002397 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 320372002398 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 320372002399 non-specific DNA binding site [nucleotide binding]; other site 320372002400 salt bridge; other site 320372002401 sequence-specific DNA binding site [nucleotide binding]; other site 320372002402 Cupin domain; Region: Cupin_2; pfam07883 320372002403 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 320372002404 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 320372002405 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 320372002406 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 320372002407 motif II; other site 320372002408 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 320372002409 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 320372002410 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 320372002411 active site 320372002412 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 320372002413 dimer interface [polypeptide binding]; other site 320372002414 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 320372002415 Ligand Binding Site [chemical binding]; other site 320372002416 Molecular Tunnel; other site 320372002417 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 320372002418 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 320372002419 hinge; other site 320372002420 active site 320372002421 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 320372002422 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 320372002423 putative active site [active] 320372002424 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_6; cd06154 320372002425 homotrimer interaction site [polypeptide binding]; other site 320372002426 putative active site [active] 320372002427 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 320372002428 amphipathic channel; other site 320372002429 Asn-Pro-Ala signature motifs; other site 320372002430 glycerol kinase; Provisional; Region: glpK; PRK00047 320372002431 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 320372002432 N- and C-terminal domain interface [polypeptide binding]; other site 320372002433 active site 320372002434 MgATP binding site [chemical binding]; other site 320372002435 catalytic site [active] 320372002436 metal binding site [ion binding]; metal-binding site 320372002437 glycerol binding site [chemical binding]; other site 320372002438 homotetramer interface [polypeptide binding]; other site 320372002439 homodimer interface [polypeptide binding]; other site 320372002440 FBP binding site [chemical binding]; other site 320372002441 protein IIAGlc interface [polypeptide binding]; other site 320372002442 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 320372002443 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 320372002444 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 320372002445 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 320372002446 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 320372002447 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 320372002448 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 320372002449 dinuclear metal binding motif [ion binding]; other site 320372002450 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 320372002451 ATP binding site [chemical binding]; other site 320372002452 Mg++ binding site [ion binding]; other site 320372002453 motif III; other site 320372002454 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 320372002455 nucleotide binding region [chemical binding]; other site 320372002456 ATP-binding site [chemical binding]; other site 320372002457 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 320372002458 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 320372002459 Cytochrome c; Region: Cytochrom_C; pfam00034 320372002460 Cytochrome c; Region: Cytochrom_C; cl11414 320372002461 Cytochrome c; Region: Cytochrom_C; cl11414 320372002462 Copper resistance protein D; Region: CopD; pfam05425 320372002463 galactonate dehydratase; Provisional; Region: PRK14017 320372002464 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 320372002465 putative active site pocket [active] 320372002466 putative metal binding site [ion binding]; other site 320372002467 Uncharacterized conserved protein [Function unknown]; Region: COG3791 320372002468 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 320372002469 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 320372002470 active site 320372002471 metal binding site [ion binding]; metal-binding site 320372002472 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 320372002473 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 320372002474 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 320372002475 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 320372002476 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 320372002477 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 320372002478 linker region; other site 320372002479 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372002480 ATP binding site [chemical binding]; other site 320372002481 Mg2+ binding site [ion binding]; other site 320372002482 G-X-G motif; other site 320372002483 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 320372002484 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372002485 active site 320372002486 phosphorylation site [posttranslational modification] 320372002487 intermolecular recognition site; other site 320372002488 dimerization interface [polypeptide binding]; other site 320372002489 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 320372002490 Zn2+ binding site [ion binding]; other site 320372002491 Mg2+ binding site [ion binding]; other site 320372002492 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 320372002493 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 320372002494 PAS domain; Region: PAS_9; pfam13426 320372002495 putative active site [active] 320372002496 heme pocket [chemical binding]; other site 320372002497 HAMP domain; Region: HAMP; pfam00672 320372002498 dimerization interface [polypeptide binding]; other site 320372002499 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 320372002500 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372002501 dimer interface [polypeptide binding]; other site 320372002502 putative CheW interface [polypeptide binding]; other site 320372002503 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 320372002504 FAD binding domain; Region: FAD_binding_4; pfam01565 320372002505 Cholesterol oxidase, substrate-binding; Region: Chol_subst-bind; pfam09129 320372002506 The 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 320372002507 dimerization interface [polypeptide binding]; other site 320372002508 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 320372002509 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 320372002510 active site residue [active] 320372002511 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 320372002512 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 320372002513 Walker A/P-loop; other site 320372002514 ATP binding site [chemical binding]; other site 320372002515 Q-loop/lid; other site 320372002516 ABC transporter signature motif; other site 320372002517 Walker B; other site 320372002518 D-loop; other site 320372002519 H-loop/switch region; other site 320372002520 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 320372002521 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 320372002522 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372002523 dimer interface [polypeptide binding]; other site 320372002524 conserved gate region; other site 320372002525 putative PBP binding loops; other site 320372002526 ABC-ATPase subunit interface; other site 320372002527 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372002528 dimer interface [polypeptide binding]; other site 320372002529 ABC-ATPase subunit interface; other site 320372002530 putative PBP binding loops; other site 320372002531 Erythromycin esterase; Region: Erythro_esteras; pfam05139 320372002532 Erythromycin esterase; Region: Erythro_esteras; pfam05139 320372002533 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 320372002534 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. 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, reaction...; Region: NAPRTase_A; cd01570 320372002535 active site 320372002536 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 320372002537 active site 320372002538 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 320372002539 Transglycosylase; Region: Transgly; cl17702 320372002540 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 320372002541 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 320372002542 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 320372002543 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 320372002544 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 320372002545 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 320372002546 D-pathway; other site 320372002547 Putative ubiquinol binding site [chemical binding]; other site 320372002548 Low-spin heme (heme b) binding site [chemical binding]; other site 320372002549 Putative water exit pathway; other site 320372002550 Binuclear center (heme o3/CuB) [ion binding]; other site 320372002551 K-pathway; other site 320372002552 Putative proton exit pathway; other site 320372002553 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 320372002554 Subunit I/III interface [polypeptide binding]; other site 320372002555 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 320372002556 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 320372002557 Cytochrome c; Region: Cytochrom_C; pfam00034 320372002558 thiamine pyrophosphate protein; Provisional; Region: PRK08273 320372002559 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 320372002560 PYR/PP interface [polypeptide binding]; other site 320372002561 dimer interface [polypeptide binding]; other site 320372002562 tetramer interface [polypeptide binding]; other site 320372002563 TPP binding site [chemical binding]; other site 320372002564 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 320372002565 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 320372002566 TPP-binding site [chemical binding]; other site 320372002567 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 320372002568 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 320372002569 metal binding site [ion binding]; metal-binding site 320372002570 substrate binding pocket [chemical binding]; other site 320372002571 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 320372002572 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 320372002573 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 320372002574 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 320372002575 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 320372002576 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 320372002577 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 320372002578 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 320372002579 active site 320372002580 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372002581 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372002582 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 320372002583 putative effector binding pocket; other site 320372002584 putative dimerization interface [polypeptide binding]; other site 320372002585 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 320372002586 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 320372002587 dimer interface [polypeptide binding]; other site 320372002588 phosphorylation site [posttranslational modification] 320372002589 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372002590 ATP binding site [chemical binding]; other site 320372002591 Mg2+ binding site [ion binding]; other site 320372002592 G-X-G motif; other site 320372002593 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372002594 Response regulator receiver domain; Region: Response_reg; pfam00072 320372002595 active site 320372002596 phosphorylation site [posttranslational modification] 320372002597 intermolecular recognition site; other site 320372002598 dimerization interface [polypeptide binding]; other site 320372002599 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 320372002600 BetR domain; Region: BetR; pfam08667 320372002601 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 320372002602 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372002603 active site 320372002604 phosphorylation site [posttranslational modification] 320372002605 intermolecular recognition site; other site 320372002606 dimerization interface [polypeptide binding]; other site 320372002607 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 320372002608 HTH-like domain; Region: HTH_21; pfam13276 320372002609 Integrase core domain; Region: rve; pfam00665 320372002610 Integrase core domain; Region: rve_3; pfam13683 320372002611 Transposase; Region: HTH_Tnp_1; pfam01527 320372002612 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 320372002613 Abortive infection C-terminus; Region: Abi_C; pfam14355 320372002614 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 320372002615 active site 320372002616 DNA binding site [nucleotide binding] 320372002617 Int/Topo IB signature motif; other site 320372002618 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372002619 putative substrate translocation pore; other site 320372002620 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 320372002621 HAMP domain; Region: HAMP; pfam00672 320372002622 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 320372002623 dimer interface [polypeptide binding]; other site 320372002624 phosphorylation site [posttranslational modification] 320372002625 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372002626 ATP binding site [chemical binding]; other site 320372002627 Mg2+ binding site [ion binding]; other site 320372002628 G-X-G motif; other site 320372002629 recombinase A; Provisional; Region: recA; PRK09354 320372002630 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 320372002631 hexamer interface [polypeptide binding]; other site 320372002632 Walker A motif; other site 320372002633 ATP binding site [chemical binding]; other site 320372002634 Walker B motif; other site 320372002635 recombination regulator RecX; Provisional; Region: recX; PRK14136 320372002636 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 320372002637 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 320372002638 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 320372002639 CoA-ligase; Region: Ligase_CoA; pfam00549 320372002640 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 320372002641 CoA binding domain; Region: CoA_binding; smart00881 320372002642 CoA-ligase; Region: Ligase_CoA; pfam00549 320372002643 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 320372002644 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 320372002645 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 320372002646 O-Antigen ligase; Region: Wzy_C; pfam04932 320372002647 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 320372002648 hypothetical protein; Provisional; Region: PRK11667 320372002649 Gram-negative bacterial tonB protein; Region: TonB; cl10048 320372002650 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 320372002651 trimer interface [polypeptide binding]; other site 320372002652 dimer interface [polypeptide binding]; other site 320372002653 putative active site [active] 320372002654 Peptidase family M48; Region: Peptidase_M48; pfam01435 320372002655 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 320372002656 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 320372002657 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 320372002658 SnoaL-like domain; Region: SnoaL_3; pfam13474 320372002659 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 320372002660 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 320372002661 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 320372002662 putative active site [active] 320372002663 Zinc-finger domain; Region: zf-CHCC; cl01821 320372002664 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 320372002665 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 320372002666 homodimer interface [polypeptide binding]; other site 320372002667 substrate-cofactor binding pocket; other site 320372002668 catalytic residue [active] 320372002669 AzlC protein; Region: AzlC; cl00570 320372002670 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 320372002671 Phosphoglycerate kinase; Region: PGK; pfam00162 320372002672 substrate binding site [chemical binding]; other site 320372002673 hinge regions; other site 320372002674 ADP binding site [chemical binding]; other site 320372002675 catalytic site [active] 320372002676 pyruvate kinase; Provisional; Region: PRK05826 320372002677 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 320372002678 domain interfaces; other site 320372002679 active site 320372002680 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 320372002681 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 320372002682 intersubunit interface [polypeptide binding]; other site 320372002683 active site 320372002684 zinc binding site [ion binding]; other site 320372002685 Na+ binding site [ion binding]; other site 320372002686 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 320372002687 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 320372002688 ATP binding site [chemical binding]; other site 320372002689 active site 320372002690 substrate binding site [chemical binding]; other site 320372002691 AIR carboxylase; Region: AIRC; pfam00731 320372002692 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 320372002693 ATP-grasp domain; Region: ATP-grasp; pfam02222 320372002694 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 320372002695 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 320372002696 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 320372002697 active site 320372002698 catalytic triad [active] 320372002699 oxyanion hole [active] 320372002700 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 320372002701 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 320372002702 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 320372002703 sensor protein QseC; Provisional; Region: PRK10337 320372002704 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372002705 ATP binding site [chemical binding]; other site 320372002706 Mg2+ binding site [ion binding]; other site 320372002707 G-X-G motif; other site 320372002708 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 320372002709 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 320372002710 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 320372002711 protein binding site [polypeptide binding]; other site 320372002712 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 320372002713 protein binding site [polypeptide binding]; other site 320372002714 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 320372002715 Domain of unknown function (DUF427); Region: DUF427; pfam04248 320372002716 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 320372002717 hydrophobic ligand binding site; other site 320372002718 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 320372002719 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372002720 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 320372002721 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 320372002722 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372002723 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372002724 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 320372002725 Protein export membrane protein; Region: SecD_SecF; cl14618 320372002726 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 320372002727 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 320372002728 xanthine permease; Region: pbuX; TIGR03173 320372002729 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 320372002730 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 320372002731 nucleotide binding site [chemical binding]; other site 320372002732 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 320372002733 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 320372002734 conserved cys residue [active] 320372002735 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372002736 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372002737 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 320372002738 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 320372002739 substrate binding site [chemical binding]; other site 320372002740 catalytic Zn binding site [ion binding]; other site 320372002741 NAD binding site [chemical binding]; other site 320372002742 structural Zn binding site [ion binding]; other site 320372002743 dimer interface [polypeptide binding]; other site 320372002744 S-formylglutathione hydrolase; Region: PLN02442 320372002745 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 320372002746 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 320372002747 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; cl00462 320372002748 dimer interface [polypeptide binding]; other site 320372002749 putative PBP binding regions; other site 320372002750 ABC-ATPase subunit interface; other site 320372002751 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 320372002752 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 320372002753 Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: TroA_b; cd01020 320372002754 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 320372002755 metal binding site [ion binding]; metal-binding site 320372002756 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 320372002757 metal binding site 2 [ion binding]; metal-binding site 320372002758 putative DNA binding helix; other site 320372002759 metal binding site 1 [ion binding]; metal-binding site 320372002760 dimer interface [polypeptide binding]; other site 320372002761 structural Zn2+ binding site [ion binding]; other site 320372002762 sorbitol dehydrogenase; Provisional; Region: PRK07067 320372002763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372002764 NAD(P) binding site [chemical binding]; other site 320372002765 active site 320372002766 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 320372002767 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 320372002768 substrate binding site [chemical binding]; other site 320372002769 ATP binding site [chemical binding]; other site 320372002770 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 320372002771 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 320372002772 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 320372002773 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 320372002774 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 320372002775 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372002776 dimer interface [polypeptide binding]; other site 320372002777 conserved gate region; other site 320372002778 putative PBP binding loops; other site 320372002779 ABC-ATPase subunit interface; other site 320372002780 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 320372002781 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372002782 dimer interface [polypeptide binding]; other site 320372002783 conserved gate region; other site 320372002784 putative PBP binding loops; other site 320372002785 ABC-ATPase subunit interface; other site 320372002786 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 320372002787 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 320372002788 active site 320372002789 motif I; other site 320372002790 motif II; other site 320372002791 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 320372002792 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 320372002793 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 320372002794 Walker A/P-loop; other site 320372002795 ATP binding site [chemical binding]; other site 320372002796 Q-loop/lid; other site 320372002797 ABC transporter signature motif; other site 320372002798 Walker B; other site 320372002799 D-loop; other site 320372002800 H-loop/switch region; other site 320372002801 TOBE domain; Region: TOBE; cl01440 320372002802 TOBE domain; Region: TOBE_2; pfam08402 320372002803 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 320372002804 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372002805 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372002806 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 320372002807 putative effector binding pocket; other site 320372002808 putative dimerization interface [polypeptide binding]; other site 320372002809 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 320372002810 Beta-lactamase; Region: Beta-lactamase; pfam00144 320372002811 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 320372002812 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372002813 putative substrate translocation pore; other site 320372002814 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 320372002815 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 320372002816 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 320372002817 N- and C-terminal domain interface [polypeptide binding]; other site 320372002818 D-xylulose kinase; Region: XylB; TIGR01312 320372002819 active site 320372002820 MgATP binding site [chemical binding]; other site 320372002821 catalytic site [active] 320372002822 metal binding site [ion binding]; metal-binding site 320372002823 xylulose binding site [chemical binding]; other site 320372002824 homodimer interface [polypeptide binding]; other site 320372002825 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 320372002826 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 320372002827 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 320372002828 benzoylformate decarboxylase; Reviewed; Region: PRK07092 320372002829 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 320372002830 PYR/PP interface [polypeptide binding]; other site 320372002831 dimer interface [polypeptide binding]; other site 320372002832 TPP binding site [chemical binding]; other site 320372002833 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 320372002834 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 320372002835 TPP-binding site [chemical binding]; other site 320372002836 dimer interface [polypeptide binding]; other site 320372002837 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 320372002838 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 320372002839 NAD(P) binding site [chemical binding]; other site 320372002840 catalytic residues [active] 320372002841 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 320372002842 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 320372002843 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 320372002844 benzoate transport; Region: 2A0115; TIGR00895 320372002845 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372002846 putative substrate translocation pore; other site 320372002847 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372002848 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 320372002849 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 320372002850 kynureninase; Region: kynureninase; TIGR01814 320372002851 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372002852 catalytic residue [active] 320372002853 arylformamidase; Region: trp_arylform; TIGR03035 320372002854 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 320372002855 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 320372002856 putative DNA binding site [nucleotide binding]; other site 320372002857 putative Zn2+ binding site [ion binding]; other site 320372002858 AsnC family; Region: AsnC_trans_reg; pfam01037 320372002859 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 320372002860 methionine sulfoxide reductase A; Provisional; Region: PRK14054 320372002861 Protein of unknown function DUF72; Region: DUF72; pfam01904 320372002862 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 320372002863 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 320372002864 S-adenosylmethionine binding site [chemical binding]; other site 320372002865 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 320372002866 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 320372002867 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 320372002868 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 320372002869 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 320372002870 putative ATP binding site [chemical binding]; other site 320372002871 putative substrate interface [chemical binding]; other site 320372002872 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 320372002873 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 320372002874 catalytic residues [active] 320372002875 AMIN domain; Region: AMIN; pfam11741 320372002876 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 320372002877 active site 320372002878 metal binding site [ion binding]; metal-binding site 320372002879 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 320372002880 epoxyqueuosine reductase; Region: TIGR00276 320372002881 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 320372002882 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 320372002883 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 320372002884 active site 320372002885 Int/Topo IB signature motif; other site 320372002886 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 320372002887 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372002888 acyl-activating enzyme (AAE) consensus motif; other site 320372002889 AMP binding site [chemical binding]; other site 320372002890 active site 320372002891 CoA binding site [chemical binding]; other site 320372002892 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 320372002893 putative deacylase active site [active] 320372002894 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 320372002895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 320372002896 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 320372002897 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 320372002898 FAD binding domain; Region: FAD_binding_4; pfam01565 320372002899 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 320372002900 ornithine carbamoyltransferase; Provisional; Region: PRK00779 320372002901 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 320372002902 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 320372002903 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 320372002904 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 320372002905 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 320372002906 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 320372002907 Uncharacterized conserved protein [Function unknown]; Region: COG2912 320372002908 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 320372002909 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 320372002910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372002911 NAD(P) binding site [chemical binding]; other site 320372002912 active site 320372002913 adenylate kinase; Reviewed; Region: adk; PRK00279 320372002914 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 320372002915 AMP-binding site [chemical binding]; other site 320372002916 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 320372002917 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 320372002918 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 320372002919 Ligand binding site; other site 320372002920 oligomer interface; other site 320372002921 Uncharacterized conserved protein [Function unknown]; Region: COG2835 320372002922 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 320372002923 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 320372002924 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 320372002925 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 320372002926 generic binding surface II; other site 320372002927 generic binding surface I; other site 320372002928 superoxide dismutase; Provisional; Region: PRK10543 320372002929 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 320372002930 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 320372002931 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 320372002932 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 320372002933 Chromate transporter; Region: Chromate_transp; pfam02417 320372002934 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 320372002935 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 320372002936 ligand binding site [chemical binding]; other site 320372002937 flexible hinge region; other site 320372002938 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 320372002939 putative switch regulator; other site 320372002940 non-specific DNA interactions [nucleotide binding]; other site 320372002941 DNA binding site [nucleotide binding] 320372002942 sequence specific DNA binding site [nucleotide binding]; other site 320372002943 putative cAMP binding site [chemical binding]; other site 320372002944 Predicted membrane protein [Function unknown]; Region: COG4539 320372002945 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 320372002946 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 320372002947 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 320372002948 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 320372002949 S-adenosylmethionine binding site [chemical binding]; other site 320372002950 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 320372002951 putative transporter; Provisional; Region: PRK10504 320372002952 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372002953 putative substrate translocation pore; other site 320372002954 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 320372002955 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 320372002956 dimer interface [polypeptide binding]; other site 320372002957 active site 320372002958 oxalacetate/citrate binding site [chemical binding]; other site 320372002959 citrylCoA binding site [chemical binding]; other site 320372002960 coenzyme A binding site [chemical binding]; other site 320372002961 catalytic triad [active] 320372002962 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 320372002963 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372002964 DNA-binding site [nucleotide binding]; DNA binding site 320372002965 UTRA domain; Region: UTRA; pfam07702 320372002966 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 320372002967 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 320372002968 active site 320372002969 catalytic tetrad [active] 320372002970 elongation factor G; Reviewed; Region: PRK00007 320372002971 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 320372002972 G1 box; other site 320372002973 putative GEF interaction site [polypeptide binding]; other site 320372002974 GTP/Mg2+ binding site [chemical binding]; other site 320372002975 Switch I region; other site 320372002976 G2 box; other site 320372002977 G3 box; other site 320372002978 Switch II region; other site 320372002979 G4 box; other site 320372002980 G5 box; other site 320372002981 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 320372002982 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 320372002983 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 320372002984 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 320372002985 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 320372002986 pseudouridine synthase; Region: TIGR00093 320372002987 active site 320372002988 isocitrate dehydrogenase; Validated; Region: PRK07362 320372002989 isocitrate dehydrogenase; Reviewed; Region: PRK07006 320372002990 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 320372002991 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 320372002992 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 320372002993 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 320372002994 DNA-binding site [nucleotide binding]; DNA binding site 320372002995 RNA-binding motif; other site 320372002996 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 320372002997 Clp amino terminal domain; Region: Clp_N; pfam02861 320372002998 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 320372002999 Walker A motif; other site 320372003000 ATP binding site [chemical binding]; other site 320372003001 Walker B motif; other site 320372003002 arginine finger; other site 320372003003 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 320372003004 Walker A motif; other site 320372003005 ATP binding site [chemical binding]; other site 320372003006 Walker B motif; other site 320372003007 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 320372003008 Uncharacterized conserved protein [Function unknown]; Region: COG2127 320372003009 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 320372003010 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 320372003011 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 320372003012 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 320372003013 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 320372003014 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 320372003015 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 320372003016 trimer interface [polypeptide binding]; other site 320372003017 active site 320372003018 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 320372003019 Flavoprotein; Region: Flavoprotein; pfam02441 320372003020 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 320372003021 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 320372003022 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 320372003023 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 320372003024 active site 320372003025 HIGH motif; other site 320372003026 nucleotide binding site [chemical binding]; other site 320372003027 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 320372003028 active site 320372003029 KMSKS motif; other site 320372003030 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 320372003031 tRNA binding surface [nucleotide binding]; other site 320372003032 anticodon binding site; other site 320372003033 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 320372003034 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 320372003035 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 320372003036 active site 320372003037 Riboflavin kinase; Region: Flavokinase; smart00904 320372003038 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 320372003039 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 320372003040 active site 320372003041 substrate binding site [chemical binding]; other site 320372003042 cosubstrate binding site; other site 320372003043 catalytic site [active] 320372003044 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 320372003045 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 320372003046 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 320372003047 Mechanosensitive ion channel; Region: MS_channel; pfam00924 320372003048 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 320372003049 Fatty acid desaturase; Region: FA_desaturase; pfam00487 320372003050 Di-iron ligands [ion binding]; other site 320372003051 Transposase; Region: DDE_Tnp_ISL3; pfam01610 320372003052 quinolinate synthetase; Provisional; Region: PRK09375 320372003053 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 320372003054 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 320372003055 dimerization interface [polypeptide binding]; other site 320372003056 active site 320372003057 L-aspartate oxidase; Provisional; Region: PRK09077 320372003058 L-aspartate oxidase; Provisional; Region: PRK06175 320372003059 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 320372003060 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 320372003061 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 320372003062 hypothetical protein; Reviewed; Region: PRK00024 320372003063 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 320372003064 MPN+ (JAMM) motif; other site 320372003065 Zinc-binding site [ion binding]; other site 320372003066 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 320372003067 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 320372003068 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 320372003069 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 320372003070 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 320372003071 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 320372003072 TM-ABC transporter signature motif; other site 320372003073 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 320372003074 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 320372003075 TM-ABC transporter signature motif; other site 320372003076 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 320372003077 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 320372003078 Walker A/P-loop; other site 320372003079 ATP binding site [chemical binding]; other site 320372003080 Q-loop/lid; other site 320372003081 ABC transporter signature motif; other site 320372003082 Walker B; other site 320372003083 D-loop; other site 320372003084 H-loop/switch region; other site 320372003085 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 320372003086 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 320372003087 Walker A/P-loop; other site 320372003088 ATP binding site [chemical binding]; other site 320372003089 Q-loop/lid; other site 320372003090 ABC transporter signature motif; other site 320372003091 Walker B; other site 320372003092 D-loop; other site 320372003093 H-loop/switch region; other site 320372003094 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 320372003095 putative acetyltransferase; Provisional; Region: PRK03624 320372003096 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 320372003097 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 320372003098 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 320372003099 inhibitor-cofactor binding pocket; inhibition site 320372003100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372003101 catalytic residue [active] 320372003102 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 320372003103 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 320372003104 catalytic loop [active] 320372003105 iron binding site [ion binding]; other site 320372003106 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 320372003107 FAD binding pocket [chemical binding]; other site 320372003108 FAD binding motif [chemical binding]; other site 320372003109 phosphate binding motif [ion binding]; other site 320372003110 beta-alpha-beta structure motif; other site 320372003111 NAD binding pocket [chemical binding]; other site 320372003112 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 320372003113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372003114 NAD(P) binding site [chemical binding]; other site 320372003115 active site 320372003116 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 320372003117 RNA binding surface [nucleotide binding]; other site 320372003118 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 320372003119 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 320372003120 active site 320372003121 uracil binding [chemical binding]; other site 320372003122 CopC domain; Region: CopC; pfam04234 320372003123 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372003124 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372003125 The 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 320372003126 dimerization interface [polypeptide binding]; other site 320372003127 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372003128 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372003129 The 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 320372003130 dimerization interface [polypeptide binding]; other site 320372003131 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 320372003132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 320372003133 MOSC domain; Region: MOSC; pfam03473 320372003134 3-alpha domain; Region: 3-alpha; pfam03475 320372003135 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 320372003136 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 320372003137 inhibitor site; inhibition site 320372003138 active site 320372003139 dimer interface [polypeptide binding]; other site 320372003140 catalytic residue [active] 320372003141 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 320372003142 intersubunit interface [polypeptide binding]; other site 320372003143 active site 320372003144 Zn2+ binding site [ion binding]; other site 320372003145 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 320372003146 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 320372003147 non-specific DNA binding site [nucleotide binding]; other site 320372003148 salt bridge; other site 320372003149 sequence-specific DNA binding site [nucleotide binding]; other site 320372003150 Cupin domain; Region: Cupin_2; pfam07883 320372003151 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 320372003152 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372003153 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 320372003154 substrate binding site [chemical binding]; other site 320372003155 dimerization interface [polypeptide binding]; other site 320372003156 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 320372003157 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 320372003158 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 320372003159 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 320372003160 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 320372003161 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 320372003162 Active Sites [active] 320372003163 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 320372003164 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 320372003165 Active Sites [active] 320372003166 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 320372003167 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 320372003168 CysD dimerization site [polypeptide binding]; other site 320372003169 G1 box; other site 320372003170 putative GEF interaction site [polypeptide binding]; other site 320372003171 GTP/Mg2+ binding site [chemical binding]; other site 320372003172 Switch I region; other site 320372003173 G2 box; other site 320372003174 G3 box; other site 320372003175 Switch II region; other site 320372003176 G4 box; other site 320372003177 G5 box; other site 320372003178 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 320372003179 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 320372003180 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 320372003181 active site 320372003182 SAM binding site [chemical binding]; other site 320372003183 homodimer interface [polypeptide binding]; other site 320372003184 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 320372003185 putative active site [active] 320372003186 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 320372003187 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 320372003188 Predicted permeases [General function prediction only]; Region: COG0795 320372003189 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 320372003190 multifunctional aminopeptidase A; Provisional; Region: PRK00913 320372003191 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 320372003192 interface (dimer of trimers) [polypeptide binding]; other site 320372003193 Substrate-binding/catalytic site; other site 320372003194 Zn-binding sites [ion binding]; other site 320372003195 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 320372003196 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 320372003197 Cytochrome c; Region: Cytochrom_C; cl11414 320372003198 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 320372003199 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 320372003200 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372003201 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 320372003202 putative dimerization interface [polypeptide binding]; other site 320372003203 putative substrate binding pocket [chemical binding]; other site 320372003204 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 320372003205 Protein of unknown function (DUF541); Region: SIMPL; cl01077 320372003206 Uncharacterized conserved protein [Function unknown]; Region: COG2947 320372003207 Cell division protein ZapA; Region: ZapA; pfam05164 320372003208 UV radiation resistance protein and autophagy-related subunit 14; Region: Atg14; pfam10186 320372003209 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 320372003210 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 320372003211 N-terminal plug; other site 320372003212 ligand-binding site [chemical binding]; other site 320372003213 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 320372003214 ABC-ATPase subunit interface; other site 320372003215 dimer interface [polypeptide binding]; other site 320372003216 putative PBP binding regions; other site 320372003217 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 320372003218 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 320372003219 Walker A/P-loop; other site 320372003220 ATP binding site [chemical binding]; other site 320372003221 Q-loop/lid; other site 320372003222 ABC transporter signature motif; other site 320372003223 Walker B; other site 320372003224 D-loop; other site 320372003225 H-loop/switch region; other site 320372003226 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 320372003227 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 320372003228 putative dimer interface [polypeptide binding]; other site 320372003229 active site pocket [active] 320372003230 putative cataytic base [active] 320372003231 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 320372003232 catalytic core [active] 320372003233 cobalamin synthase; Reviewed; Region: cobS; PRK00235 320372003234 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 320372003235 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 320372003236 cobalamin binding residues [chemical binding]; other site 320372003237 putative BtuC binding residues; other site 320372003238 dimer interface [polypeptide binding]; other site 320372003239 putative threonine-phosphate decarboxylase; Provisional; Region: PRK06959 320372003240 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 320372003241 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372003242 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 320372003243 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 320372003244 homotrimer interface [polypeptide binding]; other site 320372003245 Walker A motif; other site 320372003246 GTP binding site [chemical binding]; other site 320372003247 Walker B motif; other site 320372003248 cobyric acid synthase; Provisional; Region: PRK00784 320372003249 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 320372003250 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 320372003251 catalytic triad [active] 320372003252 DoxX; Region: DoxX; pfam07681 320372003253 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 320372003254 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 320372003255 P-loop; other site 320372003256 Magnesium ion binding site [ion binding]; other site 320372003257 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 320372003258 tetramerization interface [polypeptide binding]; other site 320372003259 active site 320372003260 pantoate--beta-alanine ligase; Region: panC; TIGR00018 320372003261 Pantoate-beta-alanine ligase; Region: PanC; cd00560 320372003262 active site 320372003263 ATP-binding site [chemical binding]; other site 320372003264 pantoate-binding site; other site 320372003265 HXXH motif; other site 320372003266 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 320372003267 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 320372003268 Surface antigen; Region: Bac_surface_Ag; pfam01103 320372003269 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 320372003270 Family of unknown function (DUF490); Region: DUF490; pfam04357 320372003271 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 320372003272 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 320372003273 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 320372003274 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 320372003275 active site 320372003276 HIGH motif; other site 320372003277 KMSKS motif; other site 320372003278 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 320372003279 tRNA binding surface [nucleotide binding]; other site 320372003280 anticodon binding site; other site 320372003281 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 320372003282 dimer interface [polypeptide binding]; other site 320372003283 putative tRNA-binding site [nucleotide binding]; other site 320372003284 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 320372003285 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 320372003286 ligand binding site [chemical binding]; other site 320372003287 Domain of unknown function DUF59; Region: DUF59; pfam01883 320372003288 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 320372003289 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 320372003290 Copper/zinc superoxide dismutase (SODC); Region: Sod_Cu; pfam00080 320372003291 E-class dimer interface [polypeptide binding]; other site 320372003292 P-class dimer interface [polypeptide binding]; other site 320372003293 active site 320372003294 Cu2+ binding site [ion binding]; other site 320372003295 Zn2+ binding site [ion binding]; other site 320372003296 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 320372003297 trimer interface [polypeptide binding]; other site 320372003298 active site 320372003299 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 320372003300 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 320372003301 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 320372003302 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372003303 catalytic residue [active] 320372003304 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 320372003305 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 320372003306 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 320372003307 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 320372003308 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 320372003309 motif II; other site 320372003310 argininosuccinate lyase; Provisional; Region: PRK00855 320372003311 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 320372003312 active sites [active] 320372003313 tetramer interface [polypeptide binding]; other site 320372003314 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 320372003315 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 320372003316 PapC C-terminal domain; Region: PapC_C; pfam13953 320372003317 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 320372003318 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 320372003319 Uncharacterized secreted protein [Function unknown]; Region: COG5430 320372003320 Spore Coat Protein U domain; Region: SCPU; pfam05229 320372003321 Spore Coat Protein U domain; Region: SCPU; pfam05229 320372003322 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 320372003323 sequence-specific DNA binding site [nucleotide binding]; other site 320372003324 salt bridge; other site 320372003325 Methyltransferase domain; Region: Methyltransf_31; pfam13847 320372003326 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 320372003327 S-adenosylmethionine binding site [chemical binding]; other site 320372003328 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 320372003329 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 320372003330 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 320372003331 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 320372003332 domain interfaces; other site 320372003333 active site 320372003334 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 320372003335 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 320372003336 active site 320372003337 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 320372003338 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 320372003339 HemY protein N-terminus; Region: HemY_N; pfam07219 320372003340 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 320372003341 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372003342 putative substrate translocation pore; other site 320372003343 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372003344 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 320372003345 NAD(P) binding site [chemical binding]; other site 320372003346 active site 320372003347 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 320372003348 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 320372003349 NAD(P) binding site [chemical binding]; other site 320372003350 catalytic residues [active] 320372003351 catalytic residues [active] 320372003352 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 320372003353 dimer interface [polypeptide binding]; other site 320372003354 substrate binding site [chemical binding]; other site 320372003355 metal binding sites [ion binding]; metal-binding site 320372003356 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 320372003357 GIY-YIG motif/motif A; other site 320372003358 putative active site [active] 320372003359 putative metal binding site [ion binding]; other site 320372003360 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 320372003361 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 320372003362 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 320372003363 Protein of unknown function, DUF482; Region: DUF482; pfam04339 320372003364 NAD synthetase; Provisional; Region: PRK13981 320372003365 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 320372003366 multimer interface [polypeptide binding]; other site 320372003367 active site 320372003368 catalytic triad [active] 320372003369 protein interface 1 [polypeptide binding]; other site 320372003370 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 320372003371 homodimer interface [polypeptide binding]; other site 320372003372 NAD binding pocket [chemical binding]; other site 320372003373 ATP binding pocket [chemical binding]; other site 320372003374 Mg binding site [ion binding]; other site 320372003375 active-site loop [active] 320372003376 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 320372003377 Nitrogen regulatory protein P-II; Region: P-II; smart00938 320372003378 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372003379 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 320372003380 trimer interface [polypeptide binding]; other site 320372003381 eyelet of channel; other site 320372003382 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 320372003383 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 320372003384 Walker A/P-loop; other site 320372003385 ATP binding site [chemical binding]; other site 320372003386 Q-loop/lid; other site 320372003387 ABC transporter signature motif; other site 320372003388 Walker B; other site 320372003389 D-loop; other site 320372003390 H-loop/switch region; other site 320372003391 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 320372003392 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372003393 dimer interface [polypeptide binding]; other site 320372003394 conserved gate region; other site 320372003395 putative PBP binding loops; other site 320372003396 ABC-ATPase subunit interface; other site 320372003397 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 320372003398 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372003399 dimer interface [polypeptide binding]; other site 320372003400 conserved gate region; other site 320372003401 putative PBP binding loops; other site 320372003402 ABC-ATPase subunit interface; other site 320372003403 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 320372003404 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 320372003405 substrate binding pocket [chemical binding]; other site 320372003406 membrane-bound complex binding site; other site 320372003407 hinge residues; other site 320372003408 Pirin-related protein [General function prediction only]; Region: COG1741 320372003409 Pirin; Region: Pirin; pfam02678 320372003410 osmolarity response regulator; Provisional; Region: ompR; PRK09468 320372003411 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372003412 active site 320372003413 phosphorylation site [posttranslational modification] 320372003414 intermolecular recognition site; other site 320372003415 dimerization interface [polypeptide binding]; other site 320372003416 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 320372003417 DNA binding site [nucleotide binding] 320372003418 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 320372003419 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 320372003420 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 320372003421 dimer interface [polypeptide binding]; other site 320372003422 phosphorylation site [posttranslational modification] 320372003423 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372003424 ATP binding site [chemical binding]; other site 320372003425 Mg2+ binding site [ion binding]; other site 320372003426 G-X-G motif; other site 320372003427 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 320372003428 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372003429 dimer interface [polypeptide binding]; other site 320372003430 conserved gate region; other site 320372003431 putative PBP binding loops; other site 320372003432 ABC-ATPase subunit interface; other site 320372003433 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372003434 dimer interface [polypeptide binding]; other site 320372003435 conserved gate region; other site 320372003436 putative PBP binding loops; other site 320372003437 ABC-ATPase subunit interface; other site 320372003438 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 320372003439 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 320372003440 Walker A/P-loop; other site 320372003441 ATP binding site [chemical binding]; other site 320372003442 Q-loop/lid; other site 320372003443 ABC transporter signature motif; other site 320372003444 Walker B; other site 320372003445 D-loop; other site 320372003446 H-loop/switch region; other site 320372003447 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 320372003448 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 320372003449 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 320372003450 active site 320372003451 homotetramer interface [polypeptide binding]; other site 320372003452 Predicted ATPase [General function prediction only]; Region: COG3911 320372003453 AAA domain; Region: AAA_28; pfam13521 320372003454 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372003455 Major Facilitator Superfamily; Region: MFS_1; pfam07690 320372003456 putative substrate translocation pore; other site 320372003457 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372003458 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 320372003459 substrate binding site [chemical binding]; other site 320372003460 ecotin; Provisional; Region: PRK03719 320372003461 secondary substrate binding site; other site 320372003462 primary substrate binding site; other site 320372003463 inhibition loop; other site 320372003464 dimerization interface [polypeptide binding]; other site 320372003465 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 320372003466 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 320372003467 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 320372003468 haemagglutination activity domain; Region: Haemagg_act; pfam05860 320372003469 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 320372003470 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 320372003471 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 320372003472 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 320372003473 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 320372003474 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 320372003475 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 320372003476 Transposase; Region: DEDD_Tnp_IS110; pfam01548 320372003477 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 320372003478 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 320372003479 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 320372003480 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 320372003481 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 320372003482 multiple promoter invertase; Provisional; Region: mpi; PRK13413 320372003483 catalytic residues [active] 320372003484 catalytic nucleophile [active] 320372003485 Presynaptic Site I dimer interface [polypeptide binding]; other site 320372003486 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 320372003487 Synaptic Flat tetramer interface [polypeptide binding]; other site 320372003488 Synaptic Site I dimer interface [polypeptide binding]; other site 320372003489 DNA binding site [nucleotide binding] 320372003490 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 320372003491 DNA-binding interface [nucleotide binding]; DNA binding site 320372003492 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 320372003493 Domain of unknown function (DUF927); Region: DUF927; pfam06048 320372003494 Transposase; Region: DEDD_Tnp_IS110; pfam01548 320372003495 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 320372003496 integrase; Provisional; Region: PRK09692 320372003497 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 320372003498 active site 320372003499 Int/Topo IB signature motif; other site 320372003500 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 320372003501 rRNA binding site [nucleotide binding]; other site 320372003502 predicted 30S ribosome binding site; other site 320372003503 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 320372003504 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 320372003505 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 320372003506 ABC transporter ATPase component; Reviewed; Region: PRK11147 320372003507 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372003508 Walker A/P-loop; other site 320372003509 ATP binding site [chemical binding]; other site 320372003510 Q-loop/lid; other site 320372003511 ABC transporter signature motif; other site 320372003512 Walker B; other site 320372003513 D-loop; other site 320372003514 H-loop/switch region; other site 320372003515 ABC transporter; Region: ABC_tran_2; pfam12848 320372003516 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 320372003517 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 320372003518 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372003519 ATP binding site [chemical binding]; other site 320372003520 Mg2+ binding site [ion binding]; other site 320372003521 G-X-G motif; other site 320372003522 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 320372003523 anchoring element; other site 320372003524 dimer interface [polypeptide binding]; other site 320372003525 ATP binding site [chemical binding]; other site 320372003526 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 320372003527 active site 320372003528 metal binding site [ion binding]; metal-binding site 320372003529 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 320372003530 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 320372003531 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 320372003532 CAP-like domain; other site 320372003533 active site 320372003534 primary dimer interface [polypeptide binding]; other site 320372003535 Predicted integral membrane protein [Function unknown]; Region: COG5615 320372003536 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372003537 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372003538 The 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 320372003539 dimerization interface [polypeptide binding]; other site 320372003540 Predicted membrane protein [Function unknown]; Region: COG4125 320372003541 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 320372003542 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 320372003543 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372003544 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372003545 The 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 320372003546 dimerization interface [polypeptide binding]; other site 320372003547 metabolite-proton symporter; Region: 2A0106; TIGR00883 320372003548 allantoate amidohydrolase; Reviewed; Region: PRK12893 320372003549 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 320372003550 active site 320372003551 metal binding site [ion binding]; metal-binding site 320372003552 dimer interface [polypeptide binding]; other site 320372003553 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 320372003554 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 320372003555 active site 320372003556 Zn binding site [ion binding]; other site 320372003557 Chromate transporter; Region: Chromate_transp; pfam02417 320372003558 Chromate transporter; Region: Chromate_transp; pfam02417 320372003559 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 320372003560 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 320372003561 metal binding site [ion binding]; metal-binding site 320372003562 active site 320372003563 I-site; other site 320372003564 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 320372003565 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 320372003566 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 320372003567 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 320372003568 homotrimer interaction site [polypeptide binding]; other site 320372003569 putative active site [active] 320372003570 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 320372003571 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 320372003572 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372003573 homodimer interface [polypeptide binding]; other site 320372003574 catalytic residue [active] 320372003575 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 320372003576 EamA-like transporter family; Region: EamA; pfam00892 320372003577 EamA-like transporter family; Region: EamA; pfam00892 320372003578 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 320372003579 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 320372003580 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372003581 DNA-binding site [nucleotide binding]; DNA binding site 320372003582 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 320372003583 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372003584 homodimer interface [polypeptide binding]; other site 320372003585 catalytic residue [active] 320372003586 heat shock protein 90; Provisional; Region: PRK05218 320372003587 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372003588 ATP binding site [chemical binding]; other site 320372003589 Mg2+ binding site [ion binding]; other site 320372003590 G-X-G motif; other site 320372003591 Chorismate lyase; Region: Chor_lyase; cl01230 320372003592 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 320372003593 putative active site [active] 320372003594 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 320372003595 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 320372003596 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 320372003597 Na binding site [ion binding]; other site 320372003598 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 320372003599 dimer interface [polypeptide binding]; other site 320372003600 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 320372003601 transaldolase-like protein; Provisional; Region: PTZ00411 320372003602 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 320372003603 active site 320372003604 dimer interface [polypeptide binding]; other site 320372003605 catalytic residue [active] 320372003606 transcription termination factor Rho; Provisional; Region: PRK12678 320372003607 Benzoate membrane transport protein; Region: BenE; pfam03594 320372003608 benzoate transporter; Region: benE; TIGR00843 320372003609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 320372003610 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 320372003611 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 320372003612 Walker A motif; other site 320372003613 ATP binding site [chemical binding]; other site 320372003614 Walker B motif; other site 320372003615 arginine finger; other site 320372003616 Cytochrome c553 [Energy production and conversion]; Region: COG2863 320372003617 Cytochrome c; Region: Cytochrom_C; cl11414 320372003618 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 320372003619 EamA-like transporter family; Region: EamA; pfam00892 320372003620 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 320372003621 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 320372003622 minor groove reading motif; other site 320372003623 helix-hairpin-helix signature motif; other site 320372003624 substrate binding pocket [chemical binding]; other site 320372003625 active site 320372003626 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 320372003627 ferredoxin; Provisional; Region: PRK06991 320372003628 Putative Fe-S cluster; Region: FeS; pfam04060 320372003629 4Fe-4S binding domain; Region: Fer4; pfam00037 320372003630 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372003631 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372003632 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 320372003633 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 320372003634 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 320372003635 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 320372003636 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 320372003637 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 320372003638 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 320372003639 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 320372003640 META domain; Region: META; pfam03724 320372003641 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 320372003642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372003643 ATP-grasp domain; Region: ATP-grasp; pfam02222 320372003644 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 320372003645 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 320372003646 DEAD-like helicases superfamily; Region: DEXDc; smart00487 320372003647 ATP binding site [chemical binding]; other site 320372003648 Mg++ binding site [ion binding]; other site 320372003649 motif III; other site 320372003650 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 320372003651 nucleotide binding region [chemical binding]; other site 320372003652 ATP-binding site [chemical binding]; other site 320372003653 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 320372003654 active site 320372003655 HIGH motif; other site 320372003656 nucleotide binding site [chemical binding]; other site 320372003657 KMSKS motif; other site 320372003658 identified by match to protein family HMM PF02811; match to protein family HMM PF07733; match to protein family HMM TIGR00594; DNA polymerase III, alpha subunit, form 1 partial 320372003659 rhodanese superfamily protein; Provisional; Region: PRK05320 320372003660 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 320372003661 active site residue [active] 320372003662 identified by match to protein family HMM PF01336; DNA polymerase III, alpha subunit, form 1; partial 320372003663 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 320372003664 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 320372003665 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 320372003666 Walker A/P-loop; other site 320372003667 ATP binding site [chemical binding]; other site 320372003668 Q-loop/lid; other site 320372003669 ABC transporter signature motif; other site 320372003670 Walker B; other site 320372003671 D-loop; other site 320372003672 H-loop/switch region; other site 320372003673 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 320372003674 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 320372003675 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 320372003676 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 320372003677 putative active site [active] 320372003678 O-Antigen ligase; Region: Wzy_C; pfam04932 320372003679 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372003680 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 320372003681 putative ADP-binding pocket [chemical binding]; other site 320372003682 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 320372003683 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 320372003684 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 320372003685 putative active site [active] 320372003686 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 320372003687 putative metal binding site; other site 320372003688 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 320372003689 Uncharacterized conserved protein [Function unknown]; Region: COG2128 320372003690 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 320372003691 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 320372003692 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 320372003693 DNA binding residues [nucleotide binding] 320372003694 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 320372003695 phospholipase C accessory protein PlcR; Region: plc_access_R; TIGR03398 320372003696 Pectinacetylesterase; Region: PAE; pfam03283 320372003697 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 320372003698 ribonuclease G; Provisional; Region: PRK11712 320372003699 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 320372003700 homodimer interface [polypeptide binding]; other site 320372003701 oligonucleotide binding site [chemical binding]; other site 320372003702 Maf-like protein; Region: Maf; pfam02545 320372003703 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 320372003704 active site 320372003705 dimer interface [polypeptide binding]; other site 320372003706 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 320372003707 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 320372003708 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 320372003709 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 320372003710 active site 320372003711 (T/H)XGH motif; other site 320372003712 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 320372003713 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 320372003714 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 320372003715 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 320372003716 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 320372003717 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 320372003718 hypothetical protein; Validated; Region: PRK00110 320372003719 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 320372003720 active site 320372003721 short chain dehydrogenase; Provisional; Region: PRK08339 320372003722 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 320372003723 putative NAD(P) binding site [chemical binding]; other site 320372003724 putative active site [active] 320372003725 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 320372003726 active site 320372003727 dimer interfaces [polypeptide binding]; other site 320372003728 catalytic residues [active] 320372003729 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 320372003730 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 320372003731 NADP binding site [chemical binding]; other site 320372003732 dimer interface [polypeptide binding]; other site 320372003733 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 320372003734 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 320372003735 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 320372003736 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 320372003737 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 320372003738 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 320372003739 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 320372003740 Ligand Binding Site [chemical binding]; other site 320372003741 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 320372003742 GAF domain; Region: GAF_3; pfam13492 320372003743 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 320372003744 dimer interface [polypeptide binding]; other site 320372003745 phosphorylation site [posttranslational modification] 320372003746 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372003747 ATP binding site [chemical binding]; other site 320372003748 Mg2+ binding site [ion binding]; other site 320372003749 G-X-G motif; other site 320372003750 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 320372003751 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372003752 active site 320372003753 phosphorylation site [posttranslational modification] 320372003754 intermolecular recognition site; other site 320372003755 dimerization interface [polypeptide binding]; other site 320372003756 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 320372003757 DNA binding site [nucleotide binding] 320372003758 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 320372003759 Domain of unknown function (DUF333); Region: DUF333; pfam03891 320372003760 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 320372003761 FtsX-like permease family; Region: FtsX; pfam02687 320372003762 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 320372003763 apolar tunnel; other site 320372003764 heme binding site [chemical binding]; other site 320372003765 dimerization interface [polypeptide binding]; other site 320372003766 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 320372003767 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 320372003768 amidase; Provisional; Region: PRK07042 320372003769 Amidase; Region: Amidase; cl11426 320372003770 metabolite-proton symporter; Region: 2A0106; TIGR00883 320372003771 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372003772 putative substrate translocation pore; other site 320372003773 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 320372003774 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 320372003775 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 320372003776 glucose-1-dehydrogenase; Provisional; Region: PRK06947 320372003777 classical (c) SDRs; Region: SDR_c; cd05233 320372003778 NAD(P) binding site [chemical binding]; other site 320372003779 active site 320372003780 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 320372003781 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372003782 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372003783 Bacterial transcriptional repressor; Region: TetR; pfam13972 320372003784 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 320372003785 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372003786 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 320372003787 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 320372003788 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 320372003789 putative active site [active] 320372003790 putative metal binding site [ion binding]; other site 320372003791 RDD family; Region: RDD; pfam06271 320372003792 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 320372003793 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 320372003794 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 320372003795 RNA polymerase factor sigma-70; Validated; Region: PRK09047 320372003796 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 320372003797 DNA binding residues [nucleotide binding] 320372003798 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 320372003799 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 320372003800 PYR/PP interface [polypeptide binding]; other site 320372003801 dimer interface [polypeptide binding]; other site 320372003802 TPP binding site [chemical binding]; other site 320372003803 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 320372003804 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 320372003805 TPP-binding site [chemical binding]; other site 320372003806 dimer interface [polypeptide binding]; other site 320372003807 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 320372003808 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 320372003809 putative valine binding site [chemical binding]; other site 320372003810 dimer interface [polypeptide binding]; other site 320372003811 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 320372003812 ketol-acid reductoisomerase; Provisional; Region: PRK05479 320372003813 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 320372003814 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 320372003815 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 320372003816 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 320372003817 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 320372003818 2-isopropylmalate synthase; Validated; Region: PRK00915 320372003819 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 320372003820 active site 320372003821 catalytic residues [active] 320372003822 metal binding site [ion binding]; metal-binding site 320372003823 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 320372003824 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 320372003825 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 320372003826 Sulfate transporter family; Region: Sulfate_transp; pfam00916 320372003827 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 320372003828 active site clefts [active] 320372003829 zinc binding site [ion binding]; other site 320372003830 dimer interface [polypeptide binding]; other site 320372003831 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 320372003832 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 320372003833 putative ligand binding site [chemical binding]; other site 320372003834 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 320372003835 16S/18S rRNA binding site [nucleotide binding]; other site 320372003836 S13e-L30e interaction site [polypeptide binding]; other site 320372003837 25S rRNA binding site [nucleotide binding]; other site 320372003838 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 320372003839 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 320372003840 RNase E interface [polypeptide binding]; other site 320372003841 trimer interface [polypeptide binding]; other site 320372003842 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 320372003843 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 320372003844 RNase E interface [polypeptide binding]; other site 320372003845 trimer interface [polypeptide binding]; other site 320372003846 active site 320372003847 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 320372003848 putative nucleic acid binding region [nucleotide binding]; other site 320372003849 G-X-X-G motif; other site 320372003850 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 320372003851 RNA binding site [nucleotide binding]; other site 320372003852 domain interface; other site 320372003853 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 320372003854 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 320372003855 NAD(P) binding site [chemical binding]; other site 320372003856 triosephosphate isomerase; Provisional; Region: PRK14567 320372003857 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 320372003858 substrate binding site [chemical binding]; other site 320372003859 dimer interface [polypeptide binding]; other site 320372003860 catalytic triad [active] 320372003861 Preprotein translocase SecG subunit; Region: SecG; pfam03840 320372003862 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 320372003863 NADH dehydrogenase subunit B; Validated; Region: PRK06411 320372003864 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 320372003865 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 320372003866 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 320372003867 NADH dehydrogenase subunit D; Validated; Region: PRK06075 320372003868 NADH dehydrogenase subunit E; Validated; Region: PRK07539 320372003869 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 320372003870 putative dimer interface [polypeptide binding]; other site 320372003871 [2Fe-2S] cluster binding site [ion binding]; other site 320372003872 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 320372003873 SLBB domain; Region: SLBB; pfam10531 320372003874 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 320372003875 NADH dehydrogenase subunit G; Validated; Region: PRK09129 320372003876 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 320372003877 catalytic loop [active] 320372003878 iron binding site [ion binding]; other site 320372003879 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 320372003880 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 320372003881 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 320372003882 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 320372003883 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 320372003884 4Fe-4S binding domain; Region: Fer4; cl02805 320372003885 4Fe-4S binding domain; Region: Fer4; pfam00037 320372003886 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 320372003887 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 320372003888 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 320372003889 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 320372003890 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 320372003891 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 320372003892 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 320372003893 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 320372003894 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 320372003895 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 320372003896 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 320372003897 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 320372003898 dimer interface [polypeptide binding]; other site 320372003899 ADP-ribose binding site [chemical binding]; other site 320372003900 active site 320372003901 nudix motif; other site 320372003902 metal binding site [ion binding]; metal-binding site 320372003903 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 320372003904 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 320372003905 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 320372003906 FAD binding site [chemical binding]; other site 320372003907 substrate binding site [chemical binding]; other site 320372003908 catalytic base [active] 320372003909 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 320372003910 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 320372003911 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 320372003912 active site 320372003913 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 320372003914 putative active site [active] 320372003915 putative catalytic site [active] 320372003916 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 320372003917 putative active site [active] 320372003918 putative catalytic site [active] 320372003919 Right handed beta helix region; Region: Beta_helix; pfam13229 320372003920 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 320372003921 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 320372003922 FAD binding site [chemical binding]; other site 320372003923 substrate binding site [chemical binding]; other site 320372003924 catalytic base [active] 320372003925 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 320372003926 putative active site [active] 320372003927 putative substrate binding site [chemical binding]; other site 320372003928 ATP binding site [chemical binding]; other site 320372003929 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 320372003930 catalytic core [active] 320372003931 enoyl-CoA hydratase; Provisional; Region: PRK07511 320372003932 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 320372003933 substrate binding site [chemical binding]; other site 320372003934 oxyanion hole (OAH) forming residues; other site 320372003935 trimer interface [polypeptide binding]; other site 320372003936 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 320372003937 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 320372003938 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 320372003939 C-terminal domain interface [polypeptide binding]; other site 320372003940 GSH binding site (G-site) [chemical binding]; other site 320372003941 dimer interface [polypeptide binding]; other site 320372003942 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 320372003943 putative N-terminal domain interface [polypeptide binding]; other site 320372003944 putative dimer interface [polypeptide binding]; other site 320372003945 putative substrate binding pocket (H-site) [chemical binding]; other site 320372003946 methionine aminotransferase; Validated; Region: PRK09082 320372003947 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 320372003948 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372003949 homodimer interface [polypeptide binding]; other site 320372003950 catalytic residue [active] 320372003951 PIN domain; Region: PIN_3; pfam13470 320372003952 PIN domain; Region: PIN_3; cl17397 320372003953 hypothetical protein; Validated; Region: PRK02101 320372003954 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 320372003955 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 320372003956 putative active site [active] 320372003957 Zn binding site [ion binding]; other site 320372003958 Predicted membrane protein [Function unknown]; Region: COG3235 320372003959 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 320372003960 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 320372003961 active site 320372003962 phosphorylation site [posttranslational modification] 320372003963 intermolecular recognition site; other site 320372003964 dimerization interface [polypeptide binding]; other site 320372003965 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 320372003966 DNA binding residues [nucleotide binding] 320372003967 dimerization interface [polypeptide binding]; other site 320372003968 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 320372003969 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 320372003970 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 320372003971 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 320372003972 active site 320372003973 Fatty acid desaturase; Region: FA_desaturase; pfam00487 320372003974 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 320372003975 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372003976 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372003977 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 320372003978 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 320372003979 ligand binding site [chemical binding]; other site 320372003980 NAD binding site [chemical binding]; other site 320372003981 tetramer interface [polypeptide binding]; other site 320372003982 catalytic site [active] 320372003983 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 320372003984 L-serine binding site [chemical binding]; other site 320372003985 ACT domain interface; other site 320372003986 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 320372003987 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 320372003988 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 320372003989 substrate binding pocket [chemical binding]; other site 320372003990 membrane-bound complex binding site; other site 320372003991 hinge residues; other site 320372003992 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 320372003993 Histidine kinase; Region: HisKA_3; pfam07730 320372003994 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372003995 ATP binding site [chemical binding]; other site 320372003996 Mg2+ binding site [ion binding]; other site 320372003997 G-X-G motif; other site 320372003998 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 320372003999 catalytic motif [active] 320372004000 Catalytic residue [active] 320372004001 Aspartyl protease; Region: Asp_protease_2; pfam13650 320372004002 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 320372004003 Cytochrome c; Region: Cytochrom_C; cl11414 320372004004 Cytochrome c; Region: Cytochrom_C; cl11414 320372004005 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 320372004006 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 320372004007 Cytochrome c; Region: Cytochrom_C; pfam00034 320372004008 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 320372004009 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 320372004010 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 320372004011 Low-spin heme binding site [chemical binding]; other site 320372004012 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 320372004013 Subunit I/II interface [polypeptide binding]; other site 320372004014 Putative Q-pathway; other site 320372004015 Putative D-pathway homolog; other site 320372004016 Putative alternate electron transfer pathway; other site 320372004017 Putative water exit pathway; other site 320372004018 Binuclear center (active site) [active] 320372004019 Putative K-pathway homolog; other site 320372004020 Putative proton exit pathway; other site 320372004021 Subunit I/IIa interface [polypeptide binding]; other site 320372004022 Electron transfer pathway; other site 320372004023 Cytochrome c553 [Energy production and conversion]; Region: COG2863 320372004024 Cytochrome c; Region: Cytochrom_C; cl11414 320372004025 HDOD domain; Region: HDOD; pfam08668 320372004026 PAS domain; Region: PAS_9; pfam13426 320372004027 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 320372004028 putative active site [active] 320372004029 heme pocket [chemical binding]; other site 320372004030 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 320372004031 metal binding site [ion binding]; metal-binding site 320372004032 active site 320372004033 I-site; other site 320372004034 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 320372004035 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 320372004036 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 320372004037 catalytic triad [active] 320372004038 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 320372004039 NADH(P)-binding; Region: NAD_binding_10; pfam13460 320372004040 NAD(P) binding site [chemical binding]; other site 320372004041 putative active site [active] 320372004042 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 320372004043 Protein export membrane protein; Region: SecD_SecF; cl14618 320372004044 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 320372004045 Protein export membrane protein; Region: SecD_SecF; cl14618 320372004046 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 320372004047 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372004048 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372004049 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 320372004050 Transcriptional regulator [Transcription]; Region: IclR; COG1414 320372004051 Bacterial transcriptional regulator; Region: IclR; pfam01614 320372004052 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 320372004053 Predicted transcriptional regulator [Transcription]; Region: COG1959 320372004054 Transcriptional regulator; Region: Rrf2; pfam02082 320372004055 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 320372004056 NADH(P)-binding; Region: NAD_binding_10; pfam13460 320372004057 NAD binding site [chemical binding]; other site 320372004058 putative active site [active] 320372004059 substrate binding site [chemical binding]; other site 320372004060 Cysteine dioxygenase type I; Region: CDO_I; pfam05995 320372004061 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 320372004062 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 320372004063 putative DNA binding site [nucleotide binding]; other site 320372004064 putative Zn2+ binding site [ion binding]; other site 320372004065 AsnC family; Region: AsnC_trans_reg; pfam01037 320372004066 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 320372004067 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 320372004068 Walker A/P-loop; other site 320372004069 ATP binding site [chemical binding]; other site 320372004070 Q-loop/lid; other site 320372004071 ABC transporter signature motif; other site 320372004072 Walker B; other site 320372004073 D-loop; other site 320372004074 H-loop/switch region; other site 320372004075 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 320372004076 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372004077 dimer interface [polypeptide binding]; other site 320372004078 conserved gate region; other site 320372004079 putative PBP binding loops; other site 320372004080 ABC-ATPase subunit interface; other site 320372004081 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372004082 ABC-ATPase subunit interface; other site 320372004083 putative PBP binding loops; other site 320372004084 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 320372004085 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 320372004086 putative proline-specific permease; Provisional; Region: proY; PRK10580 320372004087 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 320372004088 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 320372004089 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 320372004090 Family description; Region: UvrD_C_2; pfam13538 320372004091 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 320372004092 AAA domain; Region: AAA_30; pfam13604 320372004093 Family description; Region: UvrD_C_2; pfam13538 320372004094 hypothetical protein; Provisional; Region: PRK09256 320372004095 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 320372004096 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 320372004097 EamA-like transporter family; Region: EamA; pfam00892 320372004098 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 320372004099 EamA-like transporter family; Region: EamA; pfam00892 320372004100 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 320372004101 ThiC-associated domain; Region: ThiC-associated; pfam13667 320372004102 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 320372004103 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 320372004104 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 320372004105 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 320372004106 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 320372004107 Moco binding site; other site 320372004108 metal coordination site [ion binding]; other site 320372004109 EamA-like transporter family; Region: EamA; pfam00892 320372004110 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372004111 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 320372004112 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 320372004113 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 320372004114 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 320372004115 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 320372004116 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 320372004117 active site 320372004118 metal binding site [ion binding]; metal-binding site 320372004119 hexamer interface [polypeptide binding]; other site 320372004120 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 320372004121 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372004122 Walker A/P-loop; other site 320372004123 ATP binding site [chemical binding]; other site 320372004124 Q-loop/lid; other site 320372004125 ABC transporter signature motif; other site 320372004126 Walker B; other site 320372004127 D-loop; other site 320372004128 H-loop/switch region; other site 320372004129 TOBE domain; Region: TOBE_2; pfam08402 320372004130 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 320372004131 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372004132 putative PBP binding loops; other site 320372004133 ABC-ATPase subunit interface; other site 320372004134 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 320372004135 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 320372004136 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 320372004137 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 320372004138 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 320372004139 metal binding site [ion binding]; metal-binding site 320372004140 active site 320372004141 I-site; other site 320372004142 Protein of unknown function (DUF1326); Region: DUF1326; pfam07040 320372004143 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 320372004144 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 320372004145 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 320372004146 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 320372004147 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372004148 DNA-binding site [nucleotide binding]; DNA binding site 320372004149 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 320372004150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372004151 homodimer interface [polypeptide binding]; other site 320372004152 catalytic residue [active] 320372004153 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 320372004154 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 320372004155 putative DNA binding site [nucleotide binding]; other site 320372004156 putative Zn2+ binding site [ion binding]; other site 320372004157 AsnC family; Region: AsnC_trans_reg; pfam01037 320372004158 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 320372004159 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 320372004160 glutaminase active site [active] 320372004161 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 320372004162 dimer interface [polypeptide binding]; other site 320372004163 active site 320372004164 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 320372004165 dimer interface [polypeptide binding]; other site 320372004166 active site 320372004167 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 320372004168 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 320372004169 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372004170 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372004171 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 320372004172 putative effector binding pocket; other site 320372004173 putative dimerization interface [polypeptide binding]; other site 320372004174 short chain dehydrogenase; Provisional; Region: PRK12744 320372004175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372004176 NAD(P) binding site [chemical binding]; other site 320372004177 active site 320372004178 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 320372004179 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 320372004180 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 320372004181 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 320372004182 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 320372004183 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 320372004184 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372004185 DNA-binding site [nucleotide binding]; DNA binding site 320372004186 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 320372004187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372004188 homodimer interface [polypeptide binding]; other site 320372004189 catalytic residue [active] 320372004190 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 320372004191 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 320372004192 putative dimer interface [polypeptide binding]; other site 320372004193 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 320372004194 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 320372004195 putative dimer interface [polypeptide binding]; other site 320372004196 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 320372004197 dimerization interface [polypeptide binding]; other site 320372004198 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 320372004199 active site 320372004200 substrate-binding site [chemical binding]; other site 320372004201 metal-binding site [ion binding] 320372004202 GTP binding site [chemical binding]; other site 320372004203 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 320372004204 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 320372004205 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 320372004206 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372004207 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372004208 LysR substrate binding domain; Region: LysR_substrate; pfam03466 320372004209 dimerization interface [polypeptide binding]; other site 320372004210 Malonate transporter MadL subunit; Region: MadL; cl04273 320372004211 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 320372004212 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 320372004213 Coenzyme A transferase; Region: CoA_trans; cl17247 320372004214 malonate decarboxylase subunit delta; Provisional; Region: PRK02103 320372004215 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 320372004216 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 320372004217 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK02098 320372004218 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 320372004219 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293; cl07913 320372004220 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 320372004221 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 320372004222 Acyl transferase domain; Region: Acyl_transf_1; cl08282 320372004223 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 320372004224 putative active site [active] 320372004225 catalytic site [active] 320372004226 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 320372004227 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 320372004228 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 320372004229 C-terminal domain interface [polypeptide binding]; other site 320372004230 GSH binding site (G-site) [chemical binding]; other site 320372004231 dimer interface [polypeptide binding]; other site 320372004232 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 320372004233 N-terminal domain interface [polypeptide binding]; other site 320372004234 proline/glycine betaine transporter; Provisional; Region: PRK10642 320372004235 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372004236 putative substrate translocation pore; other site 320372004237 hypothetical protein; Provisional; Region: PRK02237 320372004238 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 320372004239 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 320372004240 active site 320372004241 catalytic site [active] 320372004242 substrate binding site [chemical binding]; other site 320372004243 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 320372004244 RNA/DNA hybrid binding site [nucleotide binding]; other site 320372004245 active site 320372004246 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 320372004247 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 320372004248 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 320372004249 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 320372004250 N-acetyl-D-glucosamine binding site [chemical binding]; other site 320372004251 catalytic residue [active] 320372004252 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 320372004253 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 320372004254 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372004255 Major Facilitator Superfamily; Region: MFS_1; pfam07690 320372004256 putative substrate translocation pore; other site 320372004257 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 320372004258 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372004259 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372004260 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 320372004261 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 320372004262 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 320372004263 catalytic site [active] 320372004264 subunit interface [polypeptide binding]; other site 320372004265 leucine export protein LeuE; Provisional; Region: PRK10958 320372004266 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 320372004267 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 320372004268 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 320372004269 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 320372004270 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 320372004271 ATP-grasp domain; Region: ATP-grasp_4; cl17255 320372004272 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 320372004273 IMP binding site; other site 320372004274 dimer interface [polypeptide binding]; other site 320372004275 interdomain contacts; other site 320372004276 partial ornithine binding site; other site 320372004277 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 320372004278 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 320372004279 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 320372004280 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 320372004281 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 320372004282 FtsJ-like methyltransferase; Region: FtsJ; cl17430 320372004283 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 320372004284 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 320372004285 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 320372004286 Walker A motif; other site 320372004287 ATP binding site [chemical binding]; other site 320372004288 Walker B motif; other site 320372004289 arginine finger; other site 320372004290 Peptidase family M41; Region: Peptidase_M41; pfam01434 320372004291 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 320372004292 dihydropteroate synthase; Region: DHPS; TIGR01496 320372004293 substrate binding pocket [chemical binding]; other site 320372004294 dimer interface [polypeptide binding]; other site 320372004295 inhibitor binding site; inhibition site 320372004296 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 320372004297 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 320372004298 active site 320372004299 substrate binding site [chemical binding]; other site 320372004300 metal binding site [ion binding]; metal-binding site 320372004301 PBP superfamily domain; Region: PBP_like_2; cl17296 320372004302 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 320372004303 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372004304 dimer interface [polypeptide binding]; other site 320372004305 conserved gate region; other site 320372004306 putative PBP binding loops; other site 320372004307 ABC-ATPase subunit interface; other site 320372004308 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 320372004309 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372004310 dimer interface [polypeptide binding]; other site 320372004311 conserved gate region; other site 320372004312 putative PBP binding loops; other site 320372004313 ABC-ATPase subunit interface; other site 320372004314 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 320372004315 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 320372004316 Walker A/P-loop; other site 320372004317 ATP binding site [chemical binding]; other site 320372004318 Q-loop/lid; other site 320372004319 ABC transporter signature motif; other site 320372004320 Walker B; other site 320372004321 D-loop; other site 320372004322 H-loop/switch region; other site 320372004323 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 320372004324 PhoU domain; Region: PhoU; pfam01895 320372004325 PhoU domain; Region: PhoU; pfam01895 320372004326 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 320372004327 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372004328 active site 320372004329 phosphorylation site [posttranslational modification] 320372004330 intermolecular recognition site; other site 320372004331 dimerization interface [polypeptide binding]; other site 320372004332 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 320372004333 DNA binding site [nucleotide binding] 320372004334 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 320372004335 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 320372004336 dimer interface [polypeptide binding]; other site 320372004337 phosphorylation site [posttranslational modification] 320372004338 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372004339 ATP binding site [chemical binding]; other site 320372004340 Mg2+ binding site [ion binding]; other site 320372004341 G-X-G motif; other site 320372004342 polyphosphate kinase; Provisional; Region: PRK05443 320372004343 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 320372004344 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 320372004345 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 320372004346 putative active site [active] 320372004347 catalytic site [active] 320372004348 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 320372004349 putative domain interface [polypeptide binding]; other site 320372004350 putative active site [active] 320372004351 catalytic site [active] 320372004352 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 320372004353 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 320372004354 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 320372004355 active site 320372004356 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 320372004357 Phage-related protein, tail component [Function unknown]; Region: COG4733 320372004358 Putative phage tail protein; Region: Phage-tail_3; pfam13550 320372004359 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 320372004360 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 320372004361 MPN+ (JAMM) motif; other site 320372004362 Zinc-binding site [ion binding]; other site 320372004363 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 320372004364 NlpC/P60 family; Region: NLPC_P60; cl17555 320372004365 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 320372004366 Phage minor tail protein; Region: Phage_min_tail; cl01940 320372004367 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 320372004368 Phage-related minor tail protein [Function unknown]; Region: COG5281 320372004369 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 320372004370 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 320372004371 Phage capsid family; Region: Phage_capsid; pfam05065 320372004372 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 320372004373 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 320372004374 Predicted transcriptional regulator [Transcription]; Region: COG2932 320372004375 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 320372004376 Catalytic site [active] 320372004377 Prophage antirepressor [Transcription]; Region: COG3617 320372004378 BRO family, N-terminal domain; Region: Bro-N; smart01040 320372004379 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 320372004380 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 320372004381 Walker A motif; other site 320372004382 ATP binding site [chemical binding]; other site 320372004383 Walker B motif; other site 320372004384 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 320372004385 DNA binding site [nucleotide binding] 320372004386 active site 320372004387 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 320372004388 DNA binding site [nucleotide binding] 320372004389 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 320372004390 active site 320372004391 DNA binding site [nucleotide binding] 320372004392 active site 320372004393 catalytic site [active] 320372004394 hypothetical protein; Region: PHA02030 320372004395 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 320372004396 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 320372004397 active site 320372004398 substrate binding site [chemical binding]; other site 320372004399 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 320372004400 DNA-dependent RNA polymerase; Region: RNA_pol; pfam00940 320372004401 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 320372004402 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 320372004403 active site 320372004404 DNA binding site [nucleotide binding] 320372004405 Int/Topo IB signature motif; other site 320372004406 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 320372004407 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 320372004408 dimer interface [polypeptide binding]; other site 320372004409 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 320372004410 active site 320372004411 Int/Topo IB signature motif; other site 320372004412 Phage protein Gp37/Gp68; Region: Gp37_Gp68; pfam07505 320372004413 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 320372004414 SPFH domain / Band 7 family; Region: Band_7; pfam01145 320372004415 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 320372004416 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372004417 The 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 320372004418 dimerization interface [polypeptide binding]; other site 320372004419 citrate-proton symporter; Provisional; Region: PRK15075 320372004420 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372004421 putative substrate translocation pore; other site 320372004422 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 320372004423 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 320372004424 DNA methylase; Region: N6_N4_Mtase; pfam01555 320372004425 DNA methylase; Region: N6_N4_Mtase; pfam01555 320372004426 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 320372004427 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 320372004428 Helix-turn-helix domain; Region: HTH_36; pfam13730 320372004429 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 320372004430 patatin-related protein; Region: TIGR03607 320372004431 Patatin-like phospholipase; Region: Patatin; pfam01734 320372004432 nucleophile elbow; other site 320372004433 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 320372004434 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 320372004435 non-specific DNA binding site [nucleotide binding]; other site 320372004436 salt bridge; other site 320372004437 sequence-specific DNA binding site [nucleotide binding]; other site 320372004438 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 320372004439 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 320372004440 active site 320372004441 phage terminase, small subunit, putative, P27 family; Region: sm_term_P27; TIGR01558 320372004442 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 320372004443 Phage-related protein [Function unknown]; Region: COG4695 320372004444 Phage portal protein; Region: Phage_portal; pfam04860 320372004445 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 320372004446 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 320372004447 Phage capsid family; Region: Phage_capsid; pfam05065 320372004448 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 320372004449 oligomerization interface [polypeptide binding]; other site 320372004450 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 320372004451 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 320372004452 Phage tail assembly chaperone; Region: Phage_TAC; pfam06222 320372004453 tape measure domain; Region: tape_meas_nterm; TIGR02675 320372004454 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 320372004455 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 320372004456 Phage minor tail protein; Region: Phage_min_tail; pfam05939 320372004457 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 320372004458 Phage-related protein [Function unknown]; Region: gp18; COG4672 320372004459 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 320372004460 MPN+ (JAMM) motif; other site 320372004461 Zinc-binding site [ion binding]; other site 320372004462 NlpC/P60 family; Region: NLPC_P60; cl17555 320372004463 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 320372004464 Phage-related protein, tail component [Function unknown]; Region: COG4723 320372004465 Phage-related protein, tail component [Function unknown]; Region: COG4733 320372004466 Putative phage tail protein; Region: Phage-tail_3; pfam13550 320372004467 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 320372004468 Interdomain contacts; other site 320372004469 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 320372004470 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 320372004471 catalytic residue [active] 320372004472 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 320372004473 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 320372004474 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 320372004475 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 320372004476 catalytic core [active] 320372004477 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 320372004478 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 320372004479 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 320372004480 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 320372004481 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 320372004482 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 320372004483 active site 320372004484 acyl-activating enzyme (AAE) consensus motif; other site 320372004485 putative CoA binding site [chemical binding]; other site 320372004486 AMP binding site [chemical binding]; other site 320372004487 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 320372004488 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 320372004489 Peptidase family M23; Region: Peptidase_M23; pfam01551 320372004490 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 320372004491 active site 320372004492 catalytic residues [active] 320372004493 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 320372004494 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 320372004495 Phage-related minor tail protein [Function unknown]; Region: COG5281 320372004496 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 320372004497 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 320372004498 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 320372004499 Phage capsid family; Region: Phage_capsid; pfam05065 320372004500 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 320372004501 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 320372004502 active site 320372004503 HTH-like domain; Region: HTH_21; pfam13276 320372004504 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 320372004505 Integrase core domain; Region: rve; pfam00665 320372004506 Integrase core domain; Region: rve_3; pfam13683 320372004507 Transposase; Region: HTH_Tnp_1; pfam01527 320372004508 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 320372004509 integrase; Provisional; Region: int; PHA02601 320372004510 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 320372004511 active site 320372004512 DNA binding site [nucleotide binding] 320372004513 Int/Topo IB signature motif; other site 320372004514 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 320372004515 DNA binding site [nucleotide binding] 320372004516 active site 320372004517 Int/Topo IB signature motif; other site 320372004518 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 320372004519 HTH-like domain; Region: HTH_21; pfam13276 320372004520 Integrase core domain; Region: rve; pfam00665 320372004521 Integrase core domain; Region: rve_3; pfam13683 320372004522 Transposase; Region: HTH_Tnp_1; pfam01527 320372004523 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 320372004524 PAAR motif; Region: PAAR_motif; pfam05488 320372004525 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 320372004526 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 320372004527 DNA binding residues [nucleotide binding] 320372004528 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 320372004529 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 320372004530 Leucine carboxyl methyltransferase; Region: LCM; cl01306 320372004531 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 320372004532 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 320372004533 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372004534 DNA-binding site [nucleotide binding]; DNA binding site 320372004535 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 320372004536 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372004537 homodimer interface [polypeptide binding]; other site 320372004538 catalytic residue [active] 320372004539 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 320372004540 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 320372004541 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 320372004542 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 320372004543 active site 320372004544 catalytic site [active] 320372004545 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 320372004546 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 320372004547 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 320372004548 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 320372004549 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 320372004550 active site 320372004551 catalytic site [active] 320372004552 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 320372004553 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 320372004554 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 320372004555 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 320372004556 active site 320372004557 catalytic site [active] 320372004558 glycogen branching enzyme; Provisional; Region: PRK05402 320372004559 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 320372004560 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 320372004561 active site 320372004562 catalytic site [active] 320372004563 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 320372004564 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 320372004565 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 320372004566 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 320372004567 active site 320372004568 homodimer interface [polypeptide binding]; other site 320372004569 catalytic site [active] 320372004570 acceptor binding site [chemical binding]; other site 320372004571 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 320372004572 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 320372004573 Interdomain contacts; other site 320372004574 Cytokine receptor motif; other site 320372004575 Glycoside hydrolase family 44; Region: Glyco_hydro_44; pfam12891 320372004576 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372004577 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372004578 The 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 320372004579 dimerization interface [polypeptide binding]; other site 320372004580 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 320372004581 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372004582 active site 320372004583 phosphorylation site [posttranslational modification] 320372004584 intermolecular recognition site; other site 320372004585 dimerization interface [polypeptide binding]; other site 320372004586 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 320372004587 DNA binding site [nucleotide binding] 320372004588 Protein of unknown function (DUF3955); Region: DUF3955; pfam13127 320372004589 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 320372004590 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 320372004591 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 320372004592 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372004593 active site 320372004594 phosphorylation site [posttranslational modification] 320372004595 intermolecular recognition site; other site 320372004596 dimerization interface [polypeptide binding]; other site 320372004597 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 320372004598 DNA binding site [nucleotide binding] 320372004599 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 320372004600 trimer interface [polypeptide binding]; other site 320372004601 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 320372004602 trimer interface [polypeptide binding]; other site 320372004603 YadA-like C-terminal region; Region: YadA; pfam03895 320372004604 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 320372004605 ligand binding site [chemical binding]; other site 320372004606 TPR repeat; Region: TPR_11; pfam13414 320372004607 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 320372004608 binding surface 320372004609 TPR motif; other site 320372004610 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 320372004611 H-NS histone family; Region: Histone_HNS; pfam00816 320372004612 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 320372004613 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 320372004614 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 320372004615 Cu(I) binding site [ion binding]; other site 320372004616 Ricin-type beta-trefoil; Region: RICIN; smart00458 320372004617 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 320372004618 putative sugar binding sites [chemical binding]; other site 320372004619 Q-X-W motif; other site 320372004620 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 320372004621 Ricin-type beta-trefoil lectin domain-like; Region: RicinB_lectin_2; pfam14200 320372004622 Galactose oxidase, central domain; Region: Kelch_3; cl02701 320372004623 Kelch motif; Region: Kelch_6; pfam13964 320372004624 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 320372004625 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 320372004626 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 320372004627 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 320372004628 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 320372004629 PAAR motif; Region: PAAR_motif; pfam05488 320372004630 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 320372004631 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 320372004632 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 320372004633 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 320372004634 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 320372004635 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 320372004636 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 320372004637 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 320372004638 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 320372004639 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 320372004640 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 320372004641 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 320372004642 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 320372004643 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 320372004644 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 320372004645 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 320372004646 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 320372004647 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 320372004648 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 320372004649 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 320372004650 Integrase core domain; Region: rve; pfam00665 320372004651 Integrase core domain; Region: rve_3; pfam13683 320372004652 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 320372004653 Transposase, Mutator family; Region: Transposase_mut; pfam00872 320372004654 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 320372004655 manganese transport protein MntH; Reviewed; Region: PRK00701 320372004656 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 320372004657 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 320372004658 Transposase; Region: DDE_Tnp_ISL3; pfam01610 320372004659 H-NS histone family; Region: Histone_HNS; pfam00816 320372004660 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 320372004661 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 320372004662 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 320372004663 active site 320372004664 benzoate transport; Region: 2A0115; TIGR00895 320372004665 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372004666 putative substrate translocation pore; other site 320372004667 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 320372004668 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372004669 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 320372004670 dimerization interface [polypeptide binding]; other site 320372004671 substrate binding pocket [chemical binding]; other site 320372004672 Spore Coat Protein U domain; Region: SCPU; pfam05229 320372004673 Spore Coat Protein U domain; Region: SCPU; pfam05229 320372004674 Spore Coat Protein U domain; Region: SCPU; pfam05229 320372004675 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 320372004676 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 320372004677 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 320372004678 PapC N-terminal domain; Region: PapC_N; pfam13954 320372004679 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 320372004680 PapC C-terminal domain; Region: PapC_C; pfam13953 320372004681 Spore Coat Protein U domain; Region: SCPU; pfam05229 320372004682 Spore Coat Protein U domain; Region: SCPU; pfam05229 320372004683 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 320372004684 dimer interface [polypeptide binding]; other site 320372004685 phosphorylation site [posttranslational modification] 320372004686 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372004687 ATP binding site [chemical binding]; other site 320372004688 Mg2+ binding site [ion binding]; other site 320372004689 G-X-G motif; other site 320372004690 Response regulator receiver domain; Region: Response_reg; pfam00072 320372004691 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372004692 active site 320372004693 phosphorylation site [posttranslational modification] 320372004694 intermolecular recognition site; other site 320372004695 dimerization interface [polypeptide binding]; other site 320372004696 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 320372004697 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372004698 active site 320372004699 phosphorylation site [posttranslational modification] 320372004700 intermolecular recognition site; other site 320372004701 dimerization interface [polypeptide binding]; other site 320372004702 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 320372004703 DNA binding residues [nucleotide binding] 320372004704 dimerization interface [polypeptide binding]; other site 320372004705 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 320372004706 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 320372004707 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372004708 putative substrate translocation pore; other site 320372004709 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 320372004710 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372004711 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372004712 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 320372004713 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 320372004714 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 320372004715 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 320372004716 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 320372004717 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 320372004718 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 320372004719 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 320372004720 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 320372004721 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 320372004722 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 320372004723 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 320372004724 nudix motif; other site 320372004725 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 320372004726 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 320372004727 active site 320372004728 HIGH motif; other site 320372004729 nucleotide binding site [chemical binding]; other site 320372004730 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 320372004731 KMSKS motif; other site 320372004732 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 320372004733 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 320372004734 CoA-transferase family III; Region: CoA_transf_3; pfam02515 320372004735 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 320372004736 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 320372004737 motif 1; other site 320372004738 active site 320372004739 motif 2; other site 320372004740 motif 3; other site 320372004741 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 320372004742 DHHA1 domain; Region: DHHA1; pfam02272 320372004743 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372004744 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372004745 The 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 320372004746 dimerization interface [polypeptide binding]; other site 320372004747 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 320372004748 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 320372004749 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 320372004750 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 320372004751 protein binding site [polypeptide binding]; other site 320372004752 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 320372004753 protein binding site [polypeptide binding]; other site 320372004754 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 320372004755 nudix motif; other site 320372004756 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 320372004757 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 320372004758 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 320372004759 putative active site [active] 320372004760 metal binding site [ion binding]; metal-binding site 320372004761 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 320372004762 active site 320372004763 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 320372004764 TM-ABC transporter signature motif; other site 320372004765 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 320372004766 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 320372004767 TM-ABC transporter signature motif; other site 320372004768 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 320372004769 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 320372004770 Walker A/P-loop; other site 320372004771 ATP binding site [chemical binding]; other site 320372004772 Q-loop/lid; other site 320372004773 ABC transporter signature motif; other site 320372004774 Walker B; other site 320372004775 D-loop; other site 320372004776 H-loop/switch region; other site 320372004777 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 320372004778 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 320372004779 Walker A/P-loop; other site 320372004780 ATP binding site [chemical binding]; other site 320372004781 Q-loop/lid; other site 320372004782 ABC transporter signature motif; other site 320372004783 Walker B; other site 320372004784 D-loop; other site 320372004785 H-loop/switch region; other site 320372004786 KduI/IolB family; Region: KduI; pfam04962 320372004787 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 320372004788 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 320372004789 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 320372004790 PYR/PP interface [polypeptide binding]; other site 320372004791 dimer interface [polypeptide binding]; other site 320372004792 TPP binding site [chemical binding]; other site 320372004793 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 320372004794 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 320372004795 TPP-binding site; other site 320372004796 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 320372004797 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 320372004798 substrate binding site [chemical binding]; other site 320372004799 ATP binding site [chemical binding]; other site 320372004800 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 320372004801 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 320372004802 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 320372004803 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 320372004804 Walker A/P-loop; other site 320372004805 ATP binding site [chemical binding]; other site 320372004806 Q-loop/lid; other site 320372004807 ABC transporter signature motif; other site 320372004808 Walker B; other site 320372004809 D-loop; other site 320372004810 H-loop/switch region; other site 320372004811 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 320372004812 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 320372004813 TM-ABC transporter signature motif; other site 320372004814 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 320372004815 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 320372004816 putative ligand binding site [chemical binding]; other site 320372004817 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 320372004818 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 320372004819 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 320372004820 putative active site [active] 320372004821 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 320372004822 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 320372004823 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 320372004824 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 320372004825 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 320372004826 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 320372004827 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 320372004828 CPxP motif; other site 320372004829 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 320372004830 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372004831 active site 320372004832 phosphorylation site [posttranslational modification] 320372004833 intermolecular recognition site; other site 320372004834 dimerization interface [polypeptide binding]; other site 320372004835 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 320372004836 DNA binding site [nucleotide binding] 320372004837 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 320372004838 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 320372004839 FecR protein; Region: FecR; pfam04773 320372004840 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 320372004841 CHASE2 domain; Region: CHASE2; pfam05226 320372004842 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 320372004843 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 320372004844 dimer interface [polypeptide binding]; other site 320372004845 phosphorylation site [posttranslational modification] 320372004846 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372004847 ATP binding site [chemical binding]; other site 320372004848 Mg2+ binding site [ion binding]; other site 320372004849 G-X-G motif; other site 320372004850 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 320372004851 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 320372004852 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 320372004853 active site 320372004854 tetramer interface; other site 320372004855 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 320372004856 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 320372004857 HIGH motif; other site 320372004858 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 320372004859 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 320372004860 active site 320372004861 KMSKS motif; other site 320372004862 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 320372004863 tRNA binding surface [nucleotide binding]; other site 320372004864 anticodon binding site; other site 320372004865 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 320372004866 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 320372004867 Part of AAA domain; Region: AAA_19; pfam13245 320372004868 Family description; Region: UvrD_C_2; pfam13538 320372004869 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 320372004870 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 320372004871 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372004872 Major Facilitator Superfamily; Region: MFS_1; pfam07690 320372004873 putative substrate translocation pore; other site 320372004874 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 320372004875 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372004876 dimer interface [polypeptide binding]; other site 320372004877 putative CheW interface [polypeptide binding]; other site 320372004878 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 320372004879 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372004880 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372004881 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 320372004882 Fusaric acid resistance protein family; Region: FUSC; pfam04632 320372004883 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 320372004884 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 320372004885 transcriptional regulator; Provisional; Region: PRK10632 320372004886 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372004887 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 320372004888 putative effector binding pocket; other site 320372004889 dimerization interface [polypeptide binding]; other site 320372004890 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 320372004891 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 320372004892 active site 320372004893 metal binding site [ion binding]; metal-binding site 320372004894 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 320372004895 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 320372004896 FAD binding domain; Region: FAD_binding_4; pfam01565 320372004897 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 320372004898 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 320372004899 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 320372004900 Protein of unknown function (DUF962); Region: DUF962; cl01879 320372004901 FOG: CBS domain [General function prediction only]; Region: COG0517 320372004902 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 320372004903 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 320372004904 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 320372004905 putative acyl-acceptor binding pocket; other site 320372004906 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 320372004907 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 320372004908 Tetramer interface [polypeptide binding]; other site 320372004909 active site 320372004910 FMN-binding site [chemical binding]; other site 320372004911 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 320372004912 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 320372004913 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 320372004914 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 320372004915 short chain dehydrogenase; Provisional; Region: PRK06949 320372004916 classical (c) SDRs; Region: SDR_c; cd05233 320372004917 NAD(P) binding site [chemical binding]; other site 320372004918 active site 320372004919 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 320372004920 active site 320372004921 PAS domain; Region: PAS_9; pfam13426 320372004922 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 320372004923 putative active site [active] 320372004924 heme pocket [chemical binding]; other site 320372004925 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 320372004926 DNA binding residues [nucleotide binding] 320372004927 dimerization interface [polypeptide binding]; other site 320372004928 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 320372004929 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 320372004930 short chain dehydrogenase; Provisional; Region: PRK07041 320372004931 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372004932 NAD(P) binding site [chemical binding]; other site 320372004933 active site 320372004934 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 320372004935 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 320372004936 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 320372004937 LysR family transcriptional regulator; Provisional; Region: PRK14997 320372004938 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372004939 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 320372004940 putative effector binding pocket; other site 320372004941 dimerization interface [polypeptide binding]; other site 320372004942 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 320372004943 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 320372004944 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 320372004945 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 320372004946 homotrimer interaction site [polypeptide binding]; other site 320372004947 putative active site [active] 320372004948 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 320372004949 HD domain; Region: HD_4; pfam13328 320372004950 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 320372004951 synthetase active site [active] 320372004952 NTP binding site [chemical binding]; other site 320372004953 metal binding site [ion binding]; metal-binding site 320372004954 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 320372004955 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 320372004956 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 320372004957 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 320372004958 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 320372004959 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 320372004960 active site 320372004961 dimer interface [polypeptide binding]; other site 320372004962 motif 1; other site 320372004963 motif 2; other site 320372004964 motif 3; other site 320372004965 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 320372004966 anticodon binding site; other site 320372004967 translation initiation factor IF-3; Region: infC; TIGR00168 320372004968 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 320372004969 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 320372004970 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 320372004971 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 320372004972 23S rRNA binding site [nucleotide binding]; other site 320372004973 L21 binding site [polypeptide binding]; other site 320372004974 L13 binding site [polypeptide binding]; other site 320372004975 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 320372004976 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 320372004977 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 320372004978 dimer interface [polypeptide binding]; other site 320372004979 motif 1; other site 320372004980 active site 320372004981 motif 2; other site 320372004982 motif 3; other site 320372004983 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 320372004984 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 320372004985 putative tRNA-binding site [nucleotide binding]; other site 320372004986 B3/4 domain; Region: B3_4; pfam03483 320372004987 tRNA synthetase B5 domain; Region: B5; smart00874 320372004988 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 320372004989 dimer interface [polypeptide binding]; other site 320372004990 motif 1; other site 320372004991 motif 3; other site 320372004992 motif 2; other site 320372004993 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 320372004994 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 320372004995 IHF dimer interface [polypeptide binding]; other site 320372004996 IHF - DNA interface [nucleotide binding]; other site 320372004997 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 320372004998 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 320372004999 DNA binding residues [nucleotide binding] 320372005000 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 320372005001 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 320372005002 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 320372005003 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 320372005004 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 320372005005 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 320372005006 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 320372005007 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 320372005008 Uncharacterized conserved protein [Function unknown]; Region: COG1434 320372005009 putative active site [active] 320372005010 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 320372005011 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372005012 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372005013 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 320372005014 putative dimerization interface [polypeptide binding]; other site 320372005015 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 320372005016 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 320372005017 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 320372005018 RNA binding surface [nucleotide binding]; other site 320372005019 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 320372005020 probable active site [active] 320372005021 ribosome maturation protein RimP; Reviewed; Region: PRK00092 320372005022 Sm and related proteins; Region: Sm_like; cl00259 320372005023 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 320372005024 putative oligomer interface [polypeptide binding]; other site 320372005025 putative RNA binding site [nucleotide binding]; other site 320372005026 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 320372005027 NusA N-terminal domain; Region: NusA_N; pfam08529 320372005028 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 320372005029 RNA binding site [nucleotide binding]; other site 320372005030 homodimer interface [polypeptide binding]; other site 320372005031 NusA-like KH domain; Region: KH_5; pfam13184 320372005032 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 320372005033 G-X-X-G motif; other site 320372005034 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 320372005035 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 320372005036 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 320372005037 translation initiation factor IF-2; Region: IF-2; TIGR00487 320372005038 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 320372005039 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 320372005040 G1 box; other site 320372005041 putative GEF interaction site [polypeptide binding]; other site 320372005042 GTP/Mg2+ binding site [chemical binding]; other site 320372005043 Switch I region; other site 320372005044 G2 box; other site 320372005045 G3 box; other site 320372005046 Switch II region; other site 320372005047 G4 box; other site 320372005048 G5 box; other site 320372005049 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 320372005050 Translation-initiation factor 2; Region: IF-2; pfam11987 320372005051 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 320372005052 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 320372005053 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 320372005054 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 320372005055 RNA binding site [nucleotide binding]; other site 320372005056 active site 320372005057 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 320372005058 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 320372005059 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372005060 putative substrate translocation pore; other site 320372005061 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372005062 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 320372005063 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372005064 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 320372005065 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 320372005066 Transcriptional regulators [Transcription]; Region: MarR; COG1846 320372005067 MarR family; Region: MarR_2; pfam12802 320372005068 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 320372005069 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 320372005070 G1 box; other site 320372005071 putative GEF interaction site [polypeptide binding]; other site 320372005072 GTP/Mg2+ binding site [chemical binding]; other site 320372005073 Switch I region; other site 320372005074 G2 box; other site 320372005075 G3 box; other site 320372005076 Switch II region; other site 320372005077 G4 box; other site 320372005078 G5 box; other site 320372005079 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 320372005080 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 320372005081 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 320372005082 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 320372005083 TPP-binding site [chemical binding]; other site 320372005084 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 320372005085 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 320372005086 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 320372005087 E3 interaction surface; other site 320372005088 lipoyl attachment site [posttranslational modification]; other site 320372005089 e3 binding domain; Region: E3_binding; pfam02817 320372005090 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 320372005091 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 320372005092 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 320372005093 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 320372005094 Predicted ATPase [General function prediction only]; Region: COG1485 320372005095 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372005096 Walker B; other site 320372005097 D-loop; other site 320372005098 H-loop/switch region; other site 320372005099 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 320372005100 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 320372005101 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 320372005102 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 320372005103 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 320372005104 Flp/Fap pilin component; Region: Flp_Fap; cl01585 320372005105 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 320372005106 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 320372005107 TadE-like protein; Region: TadE; pfam07811 320372005108 Flp pilus assembly protein CpaB; Region: pilus_cpaB; TIGR03177 320372005109 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 320372005110 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 320372005111 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 320372005112 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 320372005113 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 320372005114 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 320372005115 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 320372005116 ATP binding site [chemical binding]; other site 320372005117 Walker A motif; other site 320372005118 hexamer interface [polypeptide binding]; other site 320372005119 Walker B motif; other site 320372005120 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 320372005121 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 320372005122 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 320372005123 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 320372005124 TPR repeat; Region: TPR_11; pfam13414 320372005125 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 320372005126 binding surface 320372005127 TPR motif; other site 320372005128 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 320372005129 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 320372005130 Predicted membrane protein [Function unknown]; Region: COG4655 320372005131 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 320372005132 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 320372005133 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 320372005134 Walker A motif; other site 320372005135 ATP binding site [chemical binding]; other site 320372005136 Walker B motif; other site 320372005137 arginine finger; other site 320372005138 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 320372005139 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 320372005140 bacterial Hfq-like; Region: Hfq; cd01716 320372005141 hexamer interface [polypeptide binding]; other site 320372005142 Sm1 motif; other site 320372005143 RNA binding site [nucleotide binding]; other site 320372005144 Sm2 motif; other site 320372005145 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 320372005146 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 320372005147 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 320372005148 acyl-activating enzyme (AAE) consensus motif; other site 320372005149 putative AMP binding site [chemical binding]; other site 320372005150 putative active site [active] 320372005151 putative CoA binding site [chemical binding]; other site 320372005152 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372005153 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372005154 putative sialic acid transporter; Region: 2A0112; TIGR00891 320372005155 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372005156 putative substrate translocation pore; other site 320372005157 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 320372005158 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 320372005159 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 320372005160 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 320372005161 Sulfate transporter family; Region: Sulfate_transp; pfam00916 320372005162 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 320372005163 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 320372005164 metal binding site [ion binding]; metal-binding site 320372005165 Transposase; Region: DEDD_Tnp_IS110; pfam01548 320372005166 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 320372005167 Phosphoesterase family; Region: Phosphoesterase; pfam04185 320372005168 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372005169 dimer interface [polypeptide binding]; other site 320372005170 putative CheW interface [polypeptide binding]; other site 320372005171 ribonuclease R; Region: RNase_R; TIGR02063 320372005172 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 320372005173 RNB domain; Region: RNB; pfam00773 320372005174 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 320372005175 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 320372005176 RNA binding site [nucleotide binding]; other site 320372005177 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 320372005178 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 320372005179 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 320372005180 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 320372005181 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 320372005182 amidase catalytic site [active] 320372005183 Zn binding residues [ion binding]; other site 320372005184 substrate binding site [chemical binding]; other site 320372005185 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 320372005186 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 320372005187 tetramer (dimer of dimers) interface [polypeptide binding]; other site 320372005188 active site 320372005189 dimer interface [polypeptide binding]; other site 320372005190 Transcriptional regulators [Transcription]; Region: FadR; COG2186 320372005191 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372005192 DNA-binding site [nucleotide binding]; DNA binding site 320372005193 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 320372005194 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 320372005195 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 320372005196 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372005197 dimer interface [polypeptide binding]; other site 320372005198 conserved gate region; other site 320372005199 putative PBP binding loops; other site 320372005200 ABC-ATPase subunit interface; other site 320372005201 cystine transporter subunit; Provisional; Region: PRK11260 320372005202 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 320372005203 substrate binding pocket [chemical binding]; other site 320372005204 membrane-bound complex binding site; other site 320372005205 hinge residues; other site 320372005206 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 320372005207 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 320372005208 quinone interaction residues [chemical binding]; other site 320372005209 active site 320372005210 catalytic residues [active] 320372005211 FMN binding site [chemical binding]; other site 320372005212 substrate binding site [chemical binding]; other site 320372005213 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 320372005214 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 320372005215 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 320372005216 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 320372005217 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 320372005218 nudix motif; other site 320372005219 hypothetical protein; Provisional; Region: PRK02487 320372005220 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 320372005221 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 320372005222 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 320372005223 substrate binding site [chemical binding]; other site 320372005224 oxyanion hole (OAH) forming residues; other site 320372005225 trimer interface [polypeptide binding]; other site 320372005226 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 320372005227 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 320372005228 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 320372005229 active site 320372005230 dimer interface [polypeptide binding]; other site 320372005231 non-prolyl cis peptide bond; other site 320372005232 insertion regions; other site 320372005233 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 320372005234 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372005235 dimer interface [polypeptide binding]; other site 320372005236 conserved gate region; other site 320372005237 putative PBP binding loops; other site 320372005238 ABC-ATPase subunit interface; other site 320372005239 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 320372005240 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 320372005241 Walker A/P-loop; other site 320372005242 ATP binding site [chemical binding]; other site 320372005243 Q-loop/lid; other site 320372005244 ABC transporter signature motif; other site 320372005245 Walker B; other site 320372005246 D-loop; other site 320372005247 H-loop/switch region; other site 320372005248 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 320372005249 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 320372005250 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 320372005251 FMN binding site [chemical binding]; other site 320372005252 active site 320372005253 catalytic residues [active] 320372005254 substrate binding site [chemical binding]; other site 320372005255 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 320372005256 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 320372005257 Predicted transcriptional regulators [Transcription]; Region: COG1733 320372005258 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 320372005259 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 320372005260 CoenzymeA binding site [chemical binding]; other site 320372005261 subunit interaction site [polypeptide binding]; other site 320372005262 PHB binding site; other site 320372005263 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 320372005264 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 320372005265 active site 320372005266 catalytic tetrad [active] 320372005267 Predicted permease; Region: DUF318; cl17795 320372005268 ABC-2 type transporter; Region: ABC2_membrane; cl17235 320372005269 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 320372005270 nodulation ABC transporter NodI; Provisional; Region: PRK13537 320372005271 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 320372005272 Walker A/P-loop; other site 320372005273 ATP binding site [chemical binding]; other site 320372005274 Q-loop/lid; other site 320372005275 ABC transporter signature motif; other site 320372005276 Walker B; other site 320372005277 D-loop; other site 320372005278 H-loop/switch region; other site 320372005279 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 320372005280 Ligand Binding Site [chemical binding]; other site 320372005281 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 320372005282 LexA repressor; Validated; Region: PRK00215 320372005283 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 320372005284 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 320372005285 Catalytic site [active] 320372005286 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 320372005287 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 320372005288 substrate binding pocket [chemical binding]; other site 320372005289 membrane-bound complex binding site; other site 320372005290 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 320372005291 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372005292 dimer interface [polypeptide binding]; other site 320372005293 conserved gate region; other site 320372005294 putative PBP binding loops; other site 320372005295 ABC-ATPase subunit interface; other site 320372005296 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 320372005297 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372005298 dimer interface [polypeptide binding]; other site 320372005299 conserved gate region; other site 320372005300 putative PBP binding loops; other site 320372005301 ABC-ATPase subunit interface; other site 320372005302 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 320372005303 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 320372005304 Walker A/P-loop; other site 320372005305 ATP binding site [chemical binding]; other site 320372005306 Q-loop/lid; other site 320372005307 ABC transporter signature motif; other site 320372005308 Walker B; other site 320372005309 D-loop; other site 320372005310 H-loop/switch region; other site 320372005311 TOBE-like domain; Region: TOBE_3; pfam12857 320372005312 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 320372005313 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372005314 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 320372005315 substrate binding site [chemical binding]; other site 320372005316 dimerization interface [polypeptide binding]; other site 320372005317 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 320372005318 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 320372005319 ligand binding site [chemical binding]; other site 320372005320 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 320372005321 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 320372005322 Walker A/P-loop; other site 320372005323 ATP binding site [chemical binding]; other site 320372005324 Q-loop/lid; other site 320372005325 ABC transporter signature motif; other site 320372005326 Walker B; other site 320372005327 D-loop; other site 320372005328 H-loop/switch region; other site 320372005329 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 320372005330 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 320372005331 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 320372005332 TM-ABC transporter signature motif; other site 320372005333 Transcriptional regulators [Transcription]; Region: PurR; COG1609 320372005334 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 320372005335 DNA binding site [nucleotide binding] 320372005336 domain linker motif; other site 320372005337 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 320372005338 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 320372005339 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 320372005340 substrate binding site [chemical binding]; other site 320372005341 dimer interface [polypeptide binding]; other site 320372005342 ATP binding site [chemical binding]; other site 320372005343 Tar ligand binding domain homologue; Region: TarH; pfam02203 320372005344 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 320372005345 dimerization interface [polypeptide binding]; other site 320372005346 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 320372005347 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372005348 dimer interface [polypeptide binding]; other site 320372005349 putative CheW interface [polypeptide binding]; other site 320372005350 PrkA family serine protein kinase; Provisional; Region: PRK15455 320372005351 AAA ATPase domain; Region: AAA_16; pfam13191 320372005352 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 320372005353 hypothetical protein; Provisional; Region: PRK05325 320372005354 SpoVR family protein; Provisional; Region: PRK11767 320372005355 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 320372005356 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372005357 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 320372005358 putative substrate translocation pore; other site 320372005359 NMT1-like family; Region: NMT1_2; pfam13379 320372005360 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 320372005361 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 320372005362 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 320372005363 Walker A/P-loop; other site 320372005364 ATP binding site [chemical binding]; other site 320372005365 Q-loop/lid; other site 320372005366 ABC transporter signature motif; other site 320372005367 Walker B; other site 320372005368 D-loop; other site 320372005369 H-loop/switch region; other site 320372005370 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 320372005371 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 320372005372 Flp pilus assembly protein CpaB; Region: pilus_cpaB; TIGR03177 320372005373 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 320372005374 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 320372005375 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 320372005376 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 320372005377 AAA domain; Region: AAA_31; pfam13614 320372005378 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 320372005379 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 320372005380 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 320372005381 ATP binding site [chemical binding]; other site 320372005382 Walker A motif; other site 320372005383 hexamer interface [polypeptide binding]; other site 320372005384 Walker B motif; other site 320372005385 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 320372005386 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 320372005387 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 320372005388 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 320372005389 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 320372005390 binding surface 320372005391 TPR motif; other site 320372005392 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 320372005393 TadE-like protein; Region: TadE; pfam07811 320372005394 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 320372005395 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 320372005396 substrate binding pocket [chemical binding]; other site 320372005397 membrane-bound complex binding site; other site 320372005398 hinge residues; other site 320372005399 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372005400 dimer interface [polypeptide binding]; other site 320372005401 conserved gate region; other site 320372005402 putative PBP binding loops; other site 320372005403 ABC-ATPase subunit interface; other site 320372005404 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372005405 dimer interface [polypeptide binding]; other site 320372005406 conserved gate region; other site 320372005407 putative PBP binding loops; other site 320372005408 ABC-ATPase subunit interface; other site 320372005409 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 320372005410 Peptidase family M23; Region: Peptidase_M23; pfam01551 320372005411 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 320372005412 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372005413 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 320372005414 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 320372005415 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372005416 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372005417 multidrug efflux protein; Reviewed; Region: PRK09577 320372005418 Protein export membrane protein; Region: SecD_SecF; cl14618 320372005419 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 320372005420 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 320372005421 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 320372005422 PapC N-terminal domain; Region: PapC_N; pfam13954 320372005423 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 320372005424 PapC C-terminal domain; Region: PapC_C; pfam13953 320372005425 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 320372005426 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 320372005427 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 320372005428 Fimbrial protein; Region: Fimbrial; pfam00419 320372005429 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 320372005430 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372005431 Walker A/P-loop; other site 320372005432 ATP binding site [chemical binding]; other site 320372005433 Q-loop/lid; other site 320372005434 ABC transporter signature motif; other site 320372005435 Walker B; other site 320372005436 D-loop; other site 320372005437 H-loop/switch region; other site 320372005438 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 320372005439 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 320372005440 Ligand Binding Site [chemical binding]; other site 320372005441 Molecular Tunnel; other site 320372005442 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 320372005443 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 320372005444 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 320372005445 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372005446 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 320372005447 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 320372005448 Walker A/P-loop; other site 320372005449 ATP binding site [chemical binding]; other site 320372005450 Q-loop/lid; other site 320372005451 ABC transporter signature motif; other site 320372005452 Walker B; other site 320372005453 D-loop; other site 320372005454 H-loop/switch region; other site 320372005455 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 320372005456 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; cl00454 320372005457 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 320372005458 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 320372005459 TM-ABC transporter signature motif; other site 320372005460 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 320372005461 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 320372005462 NAD(P) binding site [chemical binding]; other site 320372005463 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 320372005464 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 320372005465 N- and C-terminal domain interface [polypeptide binding]; other site 320372005466 putative active site [active] 320372005467 MgATP binding site [chemical binding]; other site 320372005468 catalytic site [active] 320372005469 metal binding site [ion binding]; metal-binding site 320372005470 putative xylulose binding site [chemical binding]; other site 320372005471 putative homodimer interface [polypeptide binding]; other site 320372005472 short chain dehydrogenase; Provisional; Region: PRK07060 320372005473 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372005474 NAD(P) binding site [chemical binding]; other site 320372005475 active site 320372005476 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 320372005477 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 320372005478 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 320372005479 DNA binding residues [nucleotide binding] 320372005480 MbtH-like protein; Region: MbtH; cl01279 320372005481 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 320372005482 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 320372005483 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 320372005484 Walker A/P-loop; other site 320372005485 ATP binding site [chemical binding]; other site 320372005486 Q-loop/lid; other site 320372005487 ABC transporter signature motif; other site 320372005488 Walker B; other site 320372005489 D-loop; other site 320372005490 H-loop/switch region; other site 320372005491 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 320372005492 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; cl00462 320372005493 dimer interface [polypeptide binding]; other site 320372005494 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 320372005495 ABC-ATPase subunit interface; other site 320372005496 dimer interface [polypeptide binding]; other site 320372005497 putative PBP binding regions; other site 320372005498 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 320372005499 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 320372005500 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 320372005501 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 320372005502 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 320372005503 siderophore binding site; other site 320372005504 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 320372005505 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 320372005506 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 320372005507 Walker A/P-loop; other site 320372005508 ATP binding site [chemical binding]; other site 320372005509 Q-loop/lid; other site 320372005510 ABC transporter signature motif; other site 320372005511 Walker B; other site 320372005512 D-loop; other site 320372005513 H-loop/switch region; other site 320372005514 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372005515 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 320372005516 acyl-activating enzyme (AAE) consensus motif; other site 320372005517 AMP binding site [chemical binding]; other site 320372005518 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372005519 Condensation domain; Region: Condensation; pfam00668 320372005520 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372005521 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372005522 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372005523 acyl-activating enzyme (AAE) consensus motif; other site 320372005524 AMP binding site [chemical binding]; other site 320372005525 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372005526 Condensation domain; Region: Condensation; pfam00668 320372005527 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 320372005528 Condensation domain; Region: Condensation; pfam00668 320372005529 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372005530 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372005531 acyl-activating enzyme (AAE) consensus motif; other site 320372005532 AMP binding site [chemical binding]; other site 320372005533 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372005534 Condensation domain; Region: Condensation; pfam00668 320372005535 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372005536 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372005537 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 320372005538 acyl-activating enzyme (AAE) consensus motif; other site 320372005539 AMP binding site [chemical binding]; other site 320372005540 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372005541 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372005542 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 320372005543 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 320372005544 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 320372005545 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 320372005546 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 320372005547 N-terminal plug; other site 320372005548 ligand-binding site [chemical binding]; other site 320372005549 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 320372005550 catalytic site [active] 320372005551 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 320372005552 catalytic triad [active] 320372005553 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 320372005554 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 320372005555 homodimer interface [polypeptide binding]; other site 320372005556 Walker A motif; other site 320372005557 ATP binding site [chemical binding]; other site 320372005558 hydroxycobalamin binding site [chemical binding]; other site 320372005559 Walker B motif; other site 320372005560 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 320372005561 High-affinity nickel-transport protein; Region: NicO; cl00964 320372005562 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 320372005563 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 320372005564 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 320372005565 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 320372005566 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 320372005567 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 320372005568 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 320372005569 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 320372005570 Walker A motif; other site 320372005571 ATP binding site [chemical binding]; other site 320372005572 Walker B motif; other site 320372005573 arginine finger; other site 320372005574 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 320372005575 metal ion-dependent adhesion site (MIDAS); other site 320372005576 Phage integrase protein; Region: DUF3701; pfam12482 320372005577 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 320372005578 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 320372005579 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 320372005580 Int/Topo IB signature motif; other site 320372005581 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 320372005582 RHS Repeat; Region: RHS_repeat; pfam05593 320372005583 RHS Repeat; Region: RHS_repeat; pfam05593 320372005584 RHS Repeat; Region: RHS_repeat; pfam05593 320372005585 RHS Repeat; Region: RHS_repeat; pfam05593 320372005586 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 320372005587 RHS Repeat; Region: RHS_repeat; pfam05593 320372005588 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 320372005589 RHS Repeat; Region: RHS_repeat; cl11982 320372005590 RHS Repeat; Region: RHS_repeat; pfam05593 320372005591 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 320372005592 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 320372005593 catalytic site [active] 320372005594 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 320372005595 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 320372005596 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 320372005597 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 320372005598 putative hydrolase; Provisional; Region: PRK11460 320372005599 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 320372005600 nucleophilic elbow; other site 320372005601 catalytic triad; other site 320372005602 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 320372005603 active site 320372005604 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 320372005605 aromatic chitin/cellulose binding site residues [chemical binding]; other site 320372005606 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 320372005607 aromatic chitin/cellulose binding site residues [chemical binding]; other site 320372005608 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 320372005609 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 320372005610 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 320372005611 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 320372005612 active site 320372005613 SAM binding site [chemical binding]; other site 320372005614 homodimer interface [polypeptide binding]; other site 320372005615 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 320372005616 active site 320372005617 SAM binding site [chemical binding]; other site 320372005618 homodimer interface [polypeptide binding]; other site 320372005619 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 320372005620 Precorrin-8X methylmutase; Region: CbiC; pfam02570 320372005621 precorrin-3B synthase; Region: CobG; TIGR02435 320372005622 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 320372005623 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 320372005624 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 320372005625 active site 320372005626 putative homodimer interface [polypeptide binding]; other site 320372005627 SAM binding site [chemical binding]; other site 320372005628 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 320372005629 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 320372005630 S-adenosylmethionine binding site [chemical binding]; other site 320372005631 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 320372005632 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 320372005633 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 320372005634 active site 320372005635 SAM binding site [chemical binding]; other site 320372005636 homodimer interface [polypeptide binding]; other site 320372005637 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 320372005638 putative cyanate transporter; Provisional; Region: cynX; PRK09705 320372005639 MarR family; Region: MarR_2; cl17246 320372005640 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 320372005641 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 320372005642 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 320372005643 dimerization interface [polypeptide binding]; other site 320372005644 ligand binding site [chemical binding]; other site 320372005645 Transcriptional regulators [Transcription]; Region: MarR; COG1846 320372005646 MarR family; Region: MarR_2; pfam12802 320372005647 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 320372005648 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 320372005649 C-terminal domain interface [polypeptide binding]; other site 320372005650 GSH binding site (G-site) [chemical binding]; other site 320372005651 dimer interface [polypeptide binding]; other site 320372005652 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 320372005653 dimer interface [polypeptide binding]; other site 320372005654 N-terminal domain interface [polypeptide binding]; other site 320372005655 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372005656 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372005657 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 320372005658 putative effector binding pocket; other site 320372005659 putative dimerization interface [polypeptide binding]; other site 320372005660 Domain of unknown function (DUF336); Region: DUF336; pfam03928 320372005661 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 320372005662 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 320372005663 putative substrate binding site [chemical binding]; other site 320372005664 nucleotide binding site [chemical binding]; other site 320372005665 nucleotide binding site [chemical binding]; other site 320372005666 homodimer interface [polypeptide binding]; other site 320372005667 ornithine carbamoyltransferase; Validated; Region: PRK02102 320372005668 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 320372005669 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 320372005670 arginine deiminase; Provisional; Region: PRK01388 320372005671 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 320372005672 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372005673 ABC-ATPase subunit interface; other site 320372005674 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 320372005675 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372005676 Walker A/P-loop; other site 320372005677 ATP binding site [chemical binding]; other site 320372005678 Q-loop/lid; other site 320372005679 ABC transporter signature motif; other site 320372005680 Walker B; other site 320372005681 D-loop; other site 320372005682 H-loop/switch region; other site 320372005683 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372005684 dimer interface [polypeptide binding]; other site 320372005685 conserved gate region; other site 320372005686 putative PBP binding loops; other site 320372005687 ABC-ATPase subunit interface; other site 320372005688 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 320372005689 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 320372005690 S-adenosylmethionine binding site [chemical binding]; other site 320372005691 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372005692 putative substrate translocation pore; other site 320372005693 AMP-binding domain protein; Validated; Region: PRK07529 320372005694 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372005695 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 320372005696 acyl-activating enzyme (AAE) consensus motif; other site 320372005697 putative AMP binding site [chemical binding]; other site 320372005698 putative active site [active] 320372005699 putative CoA binding site [chemical binding]; other site 320372005700 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372005701 dimer interface [polypeptide binding]; other site 320372005702 putative CheW interface [polypeptide binding]; other site 320372005703 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 320372005704 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 320372005705 EamA-like transporter family; Region: EamA; pfam00892 320372005706 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 320372005707 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372005708 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372005709 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372005710 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 320372005711 trimer interface [polypeptide binding]; other site 320372005712 eyelet of channel; other site 320372005713 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 320372005714 MbtH-like protein; Region: MbtH; cl01279 320372005715 Cupin-like domain; Region: Cupin_8; pfam13621 320372005716 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 320372005717 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 320372005718 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372005719 homodimer interface [polypeptide binding]; other site 320372005720 catalytic residue [active] 320372005721 Methyltransferase domain; Region: Methyltransf_23; pfam13489 320372005722 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 320372005723 S-adenosylmethionine binding site [chemical binding]; other site 320372005724 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 320372005725 active site 320372005726 substrate binding site [chemical binding]; other site 320372005727 cosubstrate binding site; other site 320372005728 catalytic site [active] 320372005729 argininosuccinate synthase; Provisional; Region: PRK13820 320372005730 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 320372005731 ANP binding site [chemical binding]; other site 320372005732 Substrate Binding Site II [chemical binding]; other site 320372005733 Substrate Binding Site I [chemical binding]; other site 320372005734 argininosuccinate lyase; Provisional; Region: PRK00855 320372005735 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 320372005736 active sites [active] 320372005737 tetramer interface [polypeptide binding]; other site 320372005738 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 320372005739 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372005740 putative substrate translocation pore; other site 320372005741 Major Facilitator Superfamily; Region: MFS_1; pfam07690 320372005742 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 320372005743 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372005744 catalytic residue [active] 320372005745 dimer interface [polypeptide binding]; other site 320372005746 argininosuccinate lyase; Provisional; Region: PRK02186 320372005747 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 320372005748 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 320372005749 active sites [active] 320372005750 tetramer interface [polypeptide binding]; other site 320372005751 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 320372005752 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 320372005753 tetramer interface [polypeptide binding]; other site 320372005754 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372005755 catalytic residue [active] 320372005756 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 320372005757 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 320372005758 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 320372005759 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 320372005760 acyl-activating enzyme (AAE) consensus motif; other site 320372005761 active site 320372005762 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 320372005763 Condensation domain; Region: Condensation; pfam00668 320372005764 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372005765 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372005766 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 320372005767 acyl-activating enzyme (AAE) consensus motif; other site 320372005768 AMP binding site [chemical binding]; other site 320372005769 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372005770 Condensation domain; Region: Condensation; pfam00668 320372005771 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372005772 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372005773 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 320372005774 acyl-activating enzyme (AAE) consensus motif; other site 320372005775 AMP binding site [chemical binding]; other site 320372005776 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372005777 Condensation domain; Region: Condensation; pfam00668 320372005778 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372005779 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372005780 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372005781 acyl-activating enzyme (AAE) consensus motif; other site 320372005782 AMP binding site [chemical binding]; other site 320372005783 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372005784 Condensation domain; Region: Condensation; pfam00668 320372005785 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372005786 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372005787 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372005788 acyl-activating enzyme (AAE) consensus motif; other site 320372005789 AMP binding site [chemical binding]; other site 320372005790 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372005791 Condensation domain; Region: Condensation; pfam00668 320372005792 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372005793 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372005794 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372005795 acyl-activating enzyme (AAE) consensus motif; other site 320372005796 AMP binding site [chemical binding]; other site 320372005797 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372005798 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372005799 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 320372005800 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 320372005801 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 320372005802 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 320372005803 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 320372005804 active site 320372005805 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372005806 Phosphopantetheine attachment site; Region: PP-binding; cl09936 320372005807 Glyoxal oxidase N-terminus; Region: Glyoxal_oxid_N; pfam07250 320372005808 Kelch motif; Region: Kelch_6; pfam13964 320372005809 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 320372005810 SGNH_hydrolase subfamily, similar to Ruminococcus flavefaciens XynB. Most likely a secreted hydrolase with xylanase activity. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from...; Region: XynB_like; cd01833 320372005811 active site 320372005812 catalytic triad [active] 320372005813 oxyanion hole [active] 320372005814 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 320372005815 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 320372005816 trimer interface [polypeptide binding]; other site 320372005817 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 320372005818 Haemagglutinin; Region: HIM; pfam05662 320372005819 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 320372005820 YadA-like C-terminal region; Region: YadA; pfam03895 320372005821 Transposase; Region: HTH_Tnp_1; cl17663 320372005822 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 320372005823 multiple promoter invertase; Provisional; Region: mpi; PRK13413 320372005824 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 320372005825 catalytic residues [active] 320372005826 catalytic nucleophile [active] 320372005827 Presynaptic Site I dimer interface [polypeptide binding]; other site 320372005828 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 320372005829 Synaptic Flat tetramer interface [polypeptide binding]; other site 320372005830 Synaptic Site I dimer interface [polypeptide binding]; other site 320372005831 DNA binding site [nucleotide binding] 320372005832 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 320372005833 DNA-binding interface [nucleotide binding]; DNA binding site 320372005834 multiple promoter invertase; Provisional; Region: mpi; PRK13413 320372005835 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 320372005836 catalytic residues [active] 320372005837 catalytic nucleophile [active] 320372005838 Presynaptic Site I dimer interface [polypeptide binding]; other site 320372005839 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 320372005840 Synaptic Flat tetramer interface [polypeptide binding]; other site 320372005841 Synaptic Site I dimer interface [polypeptide binding]; other site 320372005842 DNA binding site [nucleotide binding] 320372005843 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 320372005844 DNA-binding interface [nucleotide binding]; DNA binding site 320372005845 Transcriptional regulators [Transcription]; Region: GntR; COG1802 320372005846 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372005847 DNA-binding site [nucleotide binding]; DNA binding site 320372005848 FCD domain; Region: FCD; pfam07729 320372005849 hypothetical protein; Provisional; Region: PRK05409 320372005850 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 320372005851 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 320372005852 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 320372005853 RNA polymerase sigma factor; Provisional; Region: PRK12536 320372005854 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 320372005855 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 320372005856 DNA binding residues [nucleotide binding] 320372005857 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 320372005858 active site residue [active] 320372005859 allantoate amidohydrolase; Reviewed; Region: PRK12890 320372005860 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 320372005861 active site 320372005862 metal binding site [ion binding]; metal-binding site 320372005863 dimer interface [polypeptide binding]; other site 320372005864 allantoinase; Region: allantoinase; TIGR03178 320372005865 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 320372005866 active site 320372005867 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 320372005868 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372005869 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 320372005870 putative dimerization interface [polypeptide binding]; other site 320372005871 Protein of unknown function (DUF917); Region: DUF917; pfam06032 320372005872 urocanate hydratase; Provisional; Region: PRK05414 320372005873 metabolite-proton symporter; Region: 2A0106; TIGR00883 320372005874 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372005875 putative substrate translocation pore; other site 320372005876 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 320372005877 active sites [active] 320372005878 tetramer interface [polypeptide binding]; other site 320372005879 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 320372005880 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372005881 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 320372005882 trimer interface [polypeptide binding]; other site 320372005883 eyelet of channel; other site 320372005884 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 320372005885 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372005886 active site 320372005887 phosphorylation site [posttranslational modification] 320372005888 intermolecular recognition site; other site 320372005889 dimerization interface [polypeptide binding]; other site 320372005890 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 320372005891 DNA binding site [nucleotide binding] 320372005892 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 320372005893 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 320372005894 TPR motif; other site 320372005895 binding surface 320372005896 Methyltransferase domain; Region: Methyltransf_23; pfam13489 320372005897 Methyltransferase domain; Region: Methyltransf_11; pfam08241 320372005898 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 320372005899 binding surface 320372005900 TPR motif; other site 320372005901 Tetratricopeptide repeat; Region: TPR_12; pfam13424 320372005902 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 320372005903 TPR repeat; Region: TPR_11; pfam13414 320372005904 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 320372005905 binding surface 320372005906 TPR motif; other site 320372005907 TPR repeat; Region: TPR_11; pfam13414 320372005908 TPR repeat; Region: TPR_11; pfam13414 320372005909 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 320372005910 TPR motif; other site 320372005911 binding surface 320372005912 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 320372005913 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 320372005914 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 320372005915 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372005916 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372005917 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 320372005918 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 320372005919 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 320372005920 Walker A/P-loop; other site 320372005921 ATP binding site [chemical binding]; other site 320372005922 Q-loop/lid; other site 320372005923 ABC transporter signature motif; other site 320372005924 Walker B; other site 320372005925 D-loop; other site 320372005926 H-loop/switch region; other site 320372005927 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 320372005928 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 320372005929 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 320372005930 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 320372005931 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 320372005932 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 320372005933 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 320372005934 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 320372005935 Family description; Region: VCBS; pfam13517 320372005936 Outer membrane efflux protein; Region: OEP; pfam02321 320372005937 Outer membrane efflux protein; Region: OEP; pfam02321 320372005938 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 320372005939 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 320372005940 ligand binding site [chemical binding]; other site 320372005941 H-NS histone family; Region: Histone_HNS; pfam00816 320372005942 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 320372005943 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372005944 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 320372005945 trimer interface [polypeptide binding]; other site 320372005946 eyelet of channel; other site 320372005947 succinic semialdehyde dehydrogenase; Region: PLN02278 320372005948 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 320372005949 tetramerization interface [polypeptide binding]; other site 320372005950 NAD(P) binding site [chemical binding]; other site 320372005951 catalytic residues [active] 320372005952 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 320372005953 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372005954 Walker A/P-loop; other site 320372005955 ATP binding site [chemical binding]; other site 320372005956 Q-loop/lid; other site 320372005957 ABC transporter signature motif; other site 320372005958 Walker B; other site 320372005959 D-loop; other site 320372005960 H-loop/switch region; other site 320372005961 TOBE domain; Region: TOBE_2; pfam08402 320372005962 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 320372005963 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372005964 dimer interface [polypeptide binding]; other site 320372005965 conserved gate region; other site 320372005966 putative PBP binding loops; other site 320372005967 ABC-ATPase subunit interface; other site 320372005968 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372005969 putative PBP binding loops; other site 320372005970 ABC-ATPase subunit interface; other site 320372005971 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 320372005972 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 320372005973 NIPSNAP; Region: NIPSNAP; pfam07978 320372005974 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 320372005975 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 320372005976 NAD(P) binding site [chemical binding]; other site 320372005977 catalytic residues [active] 320372005978 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 320372005979 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 320372005980 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 320372005981 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 320372005982 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 320372005983 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 320372005984 nucleophilic elbow; other site 320372005985 catalytic triad; other site 320372005986 Amino acid synthesis; Region: AA_synth; pfam06684 320372005987 Transcriptional regulators [Transcription]; Region: GntR; COG1802 320372005988 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372005989 DNA-binding site [nucleotide binding]; DNA binding site 320372005990 FCD domain; Region: FCD; pfam07729 320372005991 Transposase, Mutator family; Region: Transposase_mut; pfam00872 320372005992 H-NS histone family; Region: Histone_HNS; pfam00816 320372005993 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 320372005994 transcriptional regulator FimZ; Provisional; Region: PRK09935 320372005995 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 320372005996 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 320372005997 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 320372005998 dimer interface [polypeptide binding]; other site 320372005999 phosphorylation site [posttranslational modification] 320372006000 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372006001 ATP binding site [chemical binding]; other site 320372006002 Mg2+ binding site [ion binding]; other site 320372006003 G-X-G motif; other site 320372006004 Response regulator receiver domain; Region: Response_reg; pfam00072 320372006005 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372006006 active site 320372006007 phosphorylation site [posttranslational modification] 320372006008 intermolecular recognition site; other site 320372006009 dimerization interface [polypeptide binding]; other site 320372006010 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 320372006011 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372006012 active site 320372006013 phosphorylation site [posttranslational modification] 320372006014 intermolecular recognition site; other site 320372006015 dimerization interface [polypeptide binding]; other site 320372006016 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 320372006017 DNA binding residues [nucleotide binding] 320372006018 dimerization interface [polypeptide binding]; other site 320372006019 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 320372006020 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 320372006021 Haemagglutinin; Region: HIM; pfam05662 320372006022 YadA-like C-terminal region; Region: YadA; pfam03895 320372006023 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 320372006024 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 320372006025 PapC N-terminal domain; Region: PapC_N; pfam13954 320372006026 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 320372006027 PapC C-terminal domain; Region: PapC_C; pfam13953 320372006028 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 320372006029 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 320372006030 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 320372006031 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 320372006032 MEKHLA domain; Region: MEKHLA; pfam08670 320372006033 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 320372006034 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 320372006035 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 320372006036 dimer interface [polypeptide binding]; other site 320372006037 active site 320372006038 metal binding site [ion binding]; metal-binding site 320372006039 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 320372006040 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 320372006041 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 320372006042 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 320372006043 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 320372006044 iron-sulfur cluster [ion binding]; other site 320372006045 [2Fe-2S] cluster binding site [ion binding]; other site 320372006046 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 320372006047 dihydroxyacetone kinase; Provisional; Region: PRK14479 320372006048 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 320372006049 DAK2 domain; Region: Dak2; pfam02734 320372006050 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 320372006051 dimerization interface [polypeptide binding]; other site 320372006052 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372006053 dimer interface [polypeptide binding]; other site 320372006054 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 320372006055 putative CheW interface [polypeptide binding]; other site 320372006056 ABC-2 type transporter; Region: ABC2_membrane; cl17235 320372006057 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 320372006058 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 320372006059 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372006060 Walker A/P-loop; other site 320372006061 ATP binding site [chemical binding]; other site 320372006062 Q-loop/lid; other site 320372006063 ABC transporter signature motif; other site 320372006064 Walker B; other site 320372006065 D-loop; other site 320372006066 H-loop/switch region; other site 320372006067 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 320372006068 ApbE family; Region: ApbE; pfam02424 320372006069 nitrous-oxide reductase; Validated; Region: PRK02888 320372006070 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 320372006071 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 320372006072 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 320372006073 Walker A/P-loop; other site 320372006074 ATP binding site [chemical binding]; other site 320372006075 Q-loop/lid; other site 320372006076 ABC transporter signature motif; other site 320372006077 Walker B; other site 320372006078 D-loop; other site 320372006079 H-loop/switch region; other site 320372006080 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 320372006081 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 320372006082 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 320372006083 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 320372006084 NosL; Region: NosL; pfam05573 320372006085 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 320372006086 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 320372006087 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 320372006088 4Fe-4S binding domain; Region: Fer4_5; pfam12801 320372006089 4Fe-4S binding domain; Region: Fer4_5; pfam12801 320372006090 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 320372006091 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 320372006092 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 320372006093 Mechanosensitive ion channel; Region: MS_channel; pfam00924 320372006094 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 320372006095 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 320372006096 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 320372006097 oligomer interface [polypeptide binding]; other site 320372006098 metal binding site [ion binding]; metal-binding site 320372006099 metal binding site [ion binding]; metal-binding site 320372006100 putative Cl binding site [ion binding]; other site 320372006101 basic sphincter; other site 320372006102 hydrophobic gate; other site 320372006103 periplasmic entrance; other site 320372006104 AAA domain; Region: AAA_33; pfam13671 320372006105 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 320372006106 active site 320372006107 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 320372006108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372006109 Double zinc ribbon; Region: DZR; pfam12773 320372006110 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 320372006111 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 320372006112 AsnC family; Region: AsnC_trans_reg; pfam01037 320372006113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372006114 active site 320372006115 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372006116 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372006117 LTXXQ motif family protein; Region: LTXXQ; pfam07813 320372006118 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 320372006119 PGDYG protein; Region: PGDYG; pfam14083 320372006120 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 320372006121 transcription termination factor Rho; Provisional; Region: PRK12678 320372006122 Transcriptional regulators [Transcription]; Region: PurR; COG1609 320372006123 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 320372006124 DNA binding site [nucleotide binding] 320372006125 domain linker motif; other site 320372006126 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 320372006127 putative ligand binding site [chemical binding]; other site 320372006128 putative dimerization interface [polypeptide binding]; other site 320372006129 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 320372006130 dimerization interface [polypeptide binding]; other site 320372006131 ligand binding site [chemical binding]; other site 320372006132 NADP binding site [chemical binding]; other site 320372006133 catalytic site [active] 320372006134 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372006135 D-galactonate transporter; Region: 2A0114; TIGR00893 320372006136 putative substrate translocation pore; other site 320372006137 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 320372006138 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 320372006139 substrate binding site [chemical binding]; other site 320372006140 ATP binding site [chemical binding]; other site 320372006141 SdpI/YhfL protein family; Region: SdpI; pfam13630 320372006142 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372006143 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372006144 The 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 320372006145 dimerization interface [polypeptide binding]; other site 320372006146 Predicted membrane protein [Function unknown]; Region: COG2855 320372006147 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 320372006148 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 320372006149 Cl- selectivity filter; other site 320372006150 Cl- binding residues [ion binding]; other site 320372006151 pore gating glutamate residue; other site 320372006152 dimer interface [polypeptide binding]; other site 320372006153 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 320372006154 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372006155 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372006156 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 320372006157 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372006158 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372006159 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 320372006160 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 320372006161 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 320372006162 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 320372006163 DNA binding residues [nucleotide binding] 320372006164 putative dimer interface [polypeptide binding]; other site 320372006165 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 320372006166 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 320372006167 Predicted transcriptional regulator [Transcription]; Region: COG3655 320372006168 sequence-specific DNA binding site [nucleotide binding]; other site 320372006169 salt bridge; other site 320372006170 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 320372006171 Putative phosphatase (DUF442); Region: DUF442; cl17385 320372006172 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 320372006173 PAS fold; Region: PAS_4; pfam08448 320372006174 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 320372006175 putative active site [active] 320372006176 heme pocket [chemical binding]; other site 320372006177 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 320372006178 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 320372006179 Walker A motif; other site 320372006180 ATP binding site [chemical binding]; other site 320372006181 Walker B motif; other site 320372006182 arginine finger; other site 320372006183 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; cl17393 320372006184 DNA-binding interface [nucleotide binding]; DNA binding site 320372006185 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 320372006186 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 320372006187 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 320372006188 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372006189 dimer interface [polypeptide binding]; other site 320372006190 conserved gate region; other site 320372006191 putative PBP binding loops; other site 320372006192 ABC-ATPase subunit interface; other site 320372006193 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372006194 dimer interface [polypeptide binding]; other site 320372006195 conserved gate region; other site 320372006196 putative PBP binding loops; other site 320372006197 ABC-ATPase subunit interface; other site 320372006198 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 320372006199 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372006200 Walker A/P-loop; other site 320372006201 ATP binding site [chemical binding]; other site 320372006202 Q-loop/lid; other site 320372006203 ABC transporter signature motif; other site 320372006204 Walker B; other site 320372006205 D-loop; other site 320372006206 H-loop/switch region; other site 320372006207 TOBE domain; Region: TOBE_2; pfam08402 320372006208 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 320372006209 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 320372006210 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 320372006211 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 320372006212 Predicted Fe-S protein [General function prediction only]; Region: COG3313 320372006213 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 320372006214 Burkholderia Lethal Factor 1; Region: BPSL1549; cd12812 320372006215 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 320372006216 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 320372006217 FMN binding site [chemical binding]; other site 320372006218 substrate binding site [chemical binding]; other site 320372006219 putative catalytic residue [active] 320372006220 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 320372006221 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 320372006222 NAD binding site [chemical binding]; other site 320372006223 catalytic residues [active] 320372006224 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 320372006225 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 320372006226 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 320372006227 ABC transporter; Region: ABC_tran_2; pfam12848 320372006228 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 320372006229 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 320372006230 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 320372006231 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 320372006232 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372006233 Walker A/P-loop; other site 320372006234 ATP binding site [chemical binding]; other site 320372006235 Q-loop/lid; other site 320372006236 ABC transporter signature motif; other site 320372006237 Walker B; other site 320372006238 D-loop; other site 320372006239 H-loop/switch region; other site 320372006240 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 320372006241 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 320372006242 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 320372006243 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 320372006244 motif II; other site 320372006245 cystathionine beta-lyase; Provisional; Region: PRK07050 320372006246 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 320372006247 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372006248 catalytic residue [active] 320372006249 beta-ketothiolase; Provisional; Region: PRK09051 320372006250 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 320372006251 dimer interface [polypeptide binding]; other site 320372006252 active site 320372006253 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 320372006254 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 320372006255 substrate binding site [chemical binding]; other site 320372006256 ATP binding site [chemical binding]; other site 320372006257 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 320372006258 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 320372006259 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 320372006260 FeS/SAM binding site; other site 320372006261 TRAM domain; Region: TRAM; cl01282 320372006262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 320372006263 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 320372006264 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 320372006265 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 320372006266 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 320372006267 NAD(P) binding site [chemical binding]; other site 320372006268 homotetramer interface [polypeptide binding]; other site 320372006269 homodimer interface [polypeptide binding]; other site 320372006270 active site 320372006271 putative acyltransferase; Provisional; Region: PRK05790 320372006272 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 320372006273 dimer interface [polypeptide binding]; other site 320372006274 active site 320372006275 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 320372006276 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 320372006277 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 320372006278 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 320372006279 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 320372006280 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 320372006281 RNA binding surface [nucleotide binding]; other site 320372006282 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 320372006283 active site 320372006284 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 320372006285 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 320372006286 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 320372006287 DEAD_2; Region: DEAD_2; pfam06733 320372006288 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 320372006289 Protein of unknown function (DUF465); Region: DUF465; pfam04325 320372006290 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 320372006291 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 320372006292 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 320372006293 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 320372006294 RNA binding site [nucleotide binding]; other site 320372006295 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 320372006296 potassium uptake protein; Region: kup; TIGR00794 320372006297 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 320372006298 Transposase; Region: DDE_Tnp_ISL3; pfam01610 320372006299 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 320372006300 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 320372006301 active site 320372006302 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 320372006303 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 320372006304 GDP-binding site [chemical binding]; other site 320372006305 ACT binding site; other site 320372006306 IMP binding site; other site 320372006307 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 320372006308 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 320372006309 dimer interface [polypeptide binding]; other site 320372006310 motif 1; other site 320372006311 active site 320372006312 motif 2; other site 320372006313 motif 3; other site 320372006314 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 320372006315 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 320372006316 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 320372006317 HflK protein; Region: hflK; TIGR01933 320372006318 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 320372006319 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 320372006320 HflX GTPase family; Region: HflX; cd01878 320372006321 G1 box; other site 320372006322 GTP/Mg2+ binding site [chemical binding]; other site 320372006323 Switch I region; other site 320372006324 G2 box; other site 320372006325 G3 box; other site 320372006326 Switch II region; other site 320372006327 G4 box; other site 320372006328 G5 box; other site 320372006329 GTP-binding protein Der; Reviewed; Region: PRK00093 320372006330 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 320372006331 G1 box; other site 320372006332 GTP/Mg2+ binding site [chemical binding]; other site 320372006333 Switch I region; other site 320372006334 G2 box; other site 320372006335 Switch II region; other site 320372006336 G3 box; other site 320372006337 G4 box; other site 320372006338 G5 box; other site 320372006339 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 320372006340 G1 box; other site 320372006341 GTP/Mg2+ binding site [chemical binding]; other site 320372006342 Switch I region; other site 320372006343 G2 box; other site 320372006344 G3 box; other site 320372006345 Switch II region; other site 320372006346 G4 box; other site 320372006347 G5 box; other site 320372006348 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 320372006349 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 320372006350 Trp docking motif [polypeptide binding]; other site 320372006351 active site 320372006352 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 320372006353 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 320372006354 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 320372006355 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 320372006356 dimer interface [polypeptide binding]; other site 320372006357 motif 1; other site 320372006358 active site 320372006359 motif 2; other site 320372006360 motif 3; other site 320372006361 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 320372006362 anticodon binding site; other site 320372006363 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 320372006364 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 320372006365 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 320372006366 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 320372006367 non-specific DNA binding site [nucleotide binding]; other site 320372006368 salt bridge; other site 320372006369 sequence-specific DNA binding site [nucleotide binding]; other site 320372006370 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 320372006371 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 320372006372 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 320372006373 FeS/SAM binding site; other site 320372006374 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 320372006375 active site 320372006376 multimer interface [polypeptide binding]; other site 320372006377 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 320372006378 YccA-like proteins; Region: YccA_like; cd10433 320372006379 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 320372006380 TRAM domain; Region: TRAM; cl01282 320372006381 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 320372006382 S-adenosylmethionine binding site [chemical binding]; other site 320372006383 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 320372006384 putative catalytic site [active] 320372006385 putative metal binding site [ion binding]; other site 320372006386 putative phosphate binding site [ion binding]; other site 320372006387 putative catalytic site [active] 320372006388 putative phosphate binding site [ion binding]; other site 320372006389 putative metal binding site [ion binding]; other site 320372006390 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 320372006391 active site 320372006392 catalytic site [active] 320372006393 substrate binding site [chemical binding]; other site 320372006394 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 320372006395 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 320372006396 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 320372006397 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 320372006398 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 320372006399 DNA binding residues [nucleotide binding] 320372006400 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 320372006401 Peptidase family M23; Region: Peptidase_M23; pfam01551 320372006402 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 320372006403 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 320372006404 S-adenosylmethionine binding site [chemical binding]; other site 320372006405 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 320372006406 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 320372006407 CoA-transferase family III; Region: CoA_transf_3; pfam02515 320372006408 recombination protein RecR; Reviewed; Region: recR; PRK00076 320372006409 RecR protein; Region: RecR; pfam02132 320372006410 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 320372006411 putative active site [active] 320372006412 putative metal-binding site [ion binding]; other site 320372006413 tetramer interface [polypeptide binding]; other site 320372006414 hypothetical protein; Validated; Region: PRK00153 320372006415 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 320372006416 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 320372006417 Walker A motif; other site 320372006418 ATP binding site [chemical binding]; other site 320372006419 Walker B motif; other site 320372006420 arginine finger; other site 320372006421 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 320372006422 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 320372006423 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 320372006424 catalytic residues [active] 320372006425 transcription termination factor Rho; Provisional; Region: rho; PRK09376 320372006426 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 320372006427 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 320372006428 RNA binding site [nucleotide binding]; other site 320372006429 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 320372006430 multimer interface [polypeptide binding]; other site 320372006431 Walker A motif; other site 320372006432 ATP binding site [chemical binding]; other site 320372006433 Walker B motif; other site 320372006434 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 320372006435 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 320372006436 DNA binding residues [nucleotide binding] 320372006437 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372006438 putative substrate translocation pore; other site 320372006439 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 320372006440 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 320372006441 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 320372006442 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 320372006443 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 320372006444 putative efflux protein, MATE family; Region: matE; TIGR00797 320372006445 cation binding site [ion binding]; other site 320372006446 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 320372006447 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 320372006448 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 320372006449 DNA binding residues [nucleotide binding] 320372006450 putative dimer interface [polypeptide binding]; other site 320372006451 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 320372006452 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 320372006453 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 320372006454 Clp amino terminal domain; Region: Clp_N; pfam02861 320372006455 Clp amino terminal domain; Region: Clp_N; pfam02861 320372006456 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 320372006457 Walker A motif; other site 320372006458 ATP binding site [chemical binding]; other site 320372006459 Walker B motif; other site 320372006460 arginine finger; other site 320372006461 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 320372006462 Walker A motif; other site 320372006463 ATP binding site [chemical binding]; other site 320372006464 Walker B motif; other site 320372006465 arginine finger; other site 320372006466 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 320372006467 Transcriptional regulator; Region: Rrf2; cl17282 320372006468 Rrf2 family protein; Region: rrf2_super; TIGR00738 320372006469 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 320372006470 apolar tunnel; other site 320372006471 heme binding site [chemical binding]; other site 320372006472 dimerization interface [polypeptide binding]; other site 320372006473 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 320372006474 MoaE homodimer interface [polypeptide binding]; other site 320372006475 MoaD interaction [polypeptide binding]; other site 320372006476 active site residues [active] 320372006477 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 320372006478 MoaE interaction surface [polypeptide binding]; other site 320372006479 MoeB interaction surface [polypeptide binding]; other site 320372006480 thiocarboxylated glycine; other site 320372006481 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 320372006482 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 320372006483 dimer interface [polypeptide binding]; other site 320372006484 putative functional site; other site 320372006485 putative MPT binding site; other site 320372006486 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 320372006487 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 320372006488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372006489 catalytic residue [active] 320372006490 homoserine dehydrogenase; Provisional; Region: PRK06349 320372006491 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 320372006492 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 320372006493 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 320372006494 aminotransferase AlaT; Validated; Region: PRK09265 320372006495 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 320372006496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372006497 homodimer interface [polypeptide binding]; other site 320372006498 catalytic residue [active] 320372006499 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 320372006500 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 320372006501 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 320372006502 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 320372006503 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 320372006504 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 320372006505 inhibitor-cofactor binding pocket; inhibition site 320372006506 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372006507 catalytic residue [active] 320372006508 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 320372006509 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 320372006510 Ligand binding site; other site 320372006511 Putative Catalytic site; other site 320372006512 DXD motif; other site 320372006513 putative formyltransferase; Provisional; Region: PRK06988 320372006514 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 320372006515 active site 320372006516 substrate binding site [chemical binding]; other site 320372006517 cosubstrate binding site; other site 320372006518 catalytic site [active] 320372006519 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 320372006520 active site 320372006521 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 320372006522 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 320372006523 NAD binding site [chemical binding]; other site 320372006524 substrate binding site [chemical binding]; other site 320372006525 active site 320372006526 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 320372006527 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 320372006528 putative active site [active] 320372006529 putative catalytic site [active] 320372006530 putative Zn binding site [ion binding]; other site 320372006531 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 320372006532 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 320372006533 catalytic triad [active] 320372006534 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 320372006535 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 320372006536 putative active site [active] 320372006537 PhoH-like protein; Region: PhoH; pfam02562 320372006538 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 320372006539 NlpC/P60 family; Region: NLPC_P60; pfam00877 320372006540 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 320372006541 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 320372006542 replicative DNA helicase; Provisional; Region: PRK07004 320372006543 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 320372006544 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 320372006545 Walker A motif; other site 320372006546 ATP binding site [chemical binding]; other site 320372006547 Walker B motif; other site 320372006548 DNA binding loops [nucleotide binding] 320372006549 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 320372006550 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 320372006551 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 320372006552 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 320372006553 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 320372006554 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 320372006555 Putative zinc-finger; Region: zf-HC2; pfam13490 320372006556 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 320372006557 RNA polymerase sigma factor; Provisional; Region: PRK12533 320372006558 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 320372006559 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 320372006560 DNA binding residues [nucleotide binding] 320372006561 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 320372006562 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 320372006563 active site 320372006564 metal binding site [ion binding]; metal-binding site 320372006565 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 320372006566 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372006567 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372006568 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 320372006569 putative effector binding pocket; other site 320372006570 dimerization interface [polypeptide binding]; other site 320372006571 glyoxylate carboligase; Provisional; Region: PRK11269 320372006572 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 320372006573 PYR/PP interface [polypeptide binding]; other site 320372006574 dimer interface [polypeptide binding]; other site 320372006575 TPP binding site [chemical binding]; other site 320372006576 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 320372006577 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 320372006578 TPP-binding site [chemical binding]; other site 320372006579 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 320372006580 tartronate semialdehyde reductase; Provisional; Region: PRK15059 320372006581 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 320372006582 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 320372006583 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 320372006584 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 320372006585 active site 320372006586 homodimer interface [polypeptide binding]; other site 320372006587 homotetramer interface [polypeptide binding]; other site 320372006588 Domain of unknown function DUF221; Region: DUF221; pfam02714 320372006589 psiF repeat; Region: PsiF_repeat; pfam07769 320372006590 psiF repeat; Region: PsiF_repeat; pfam07769 320372006591 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 320372006592 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 320372006593 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372006594 putative ADP-binding pocket [chemical binding]; other site 320372006595 Predicted ATPase [General function prediction only]; Region: COG4637 320372006596 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372006597 Walker A/P-loop; other site 320372006598 ATP binding site [chemical binding]; other site 320372006599 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 320372006600 Mechanosensitive ion channel; Region: MS_channel; pfam00924 320372006601 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 320372006602 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 320372006603 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 320372006604 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 320372006605 active site 320372006606 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 320372006607 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 320372006608 Coenzyme A binding pocket [chemical binding]; other site 320372006609 DNA polymerase III subunit delta'; Validated; Region: PRK06964 320372006610 DNA polymerase III subunit delta'; Validated; Region: PRK08485 320372006611 thymidylate kinase; Validated; Region: tmk; PRK00698 320372006612 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 320372006613 TMP-binding site; other site 320372006614 ATP-binding site [chemical binding]; other site 320372006615 YceG-like family; Region: YceG; pfam02618 320372006616 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 320372006617 dimerization interface [polypeptide binding]; other site 320372006618 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 320372006619 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 320372006620 NRDE protein; Region: NRDE; cl01315 320372006621 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 320372006622 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 320372006623 Coenzyme A binding pocket [chemical binding]; other site 320372006624 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 320372006625 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 320372006626 substrate binding pocket [chemical binding]; other site 320372006627 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 320372006628 Prostaglandin dehydrogenases; Region: PGDH; cd05288 320372006629 NAD(P) binding site [chemical binding]; other site 320372006630 substrate binding site [chemical binding]; other site 320372006631 dimer interface [polypeptide binding]; other site 320372006632 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 320372006633 CoenzymeA binding site [chemical binding]; other site 320372006634 subunit interaction site [polypeptide binding]; other site 320372006635 PHB binding site; other site 320372006636 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 320372006637 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 320372006638 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 320372006639 dimer interface [polypeptide binding]; other site 320372006640 active site 320372006641 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 320372006642 catalytic triad [active] 320372006643 metal binding site [ion binding]; metal-binding site 320372006644 conserved cis-peptide bond; other site 320372006645 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 320372006646 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 320372006647 substrate binding site [chemical binding]; other site 320372006648 oxyanion hole (OAH) forming residues; other site 320372006649 trimer interface [polypeptide binding]; other site 320372006650 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 320372006651 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 320372006652 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 320372006653 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 320372006654 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 320372006655 dimer interface [polypeptide binding]; other site 320372006656 acyl-activating enzyme (AAE) consensus motif; other site 320372006657 putative active site [active] 320372006658 AMP binding site [chemical binding]; other site 320372006659 putative CoA binding site [chemical binding]; other site 320372006660 Uncharacterized conserved protein [Function unknown]; Region: COG0397 320372006661 hypothetical protein; Validated; Region: PRK00029 320372006662 SelR domain; Region: SelR; pfam01641 320372006663 methionine sulfoxide reductase B; Provisional; Region: PRK00222 320372006664 intracellular septation protein A; Reviewed; Region: PRK00259 320372006665 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 320372006666 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 320372006667 Predicted acetyltransferase [General function prediction only]; Region: COG3153 320372006668 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 320372006669 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 320372006670 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 320372006671 dimerization interface [polypeptide binding]; other site 320372006672 ATP binding site [chemical binding]; other site 320372006673 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 320372006674 dimerization interface [polypeptide binding]; other site 320372006675 ATP binding site [chemical binding]; other site 320372006676 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 320372006677 putative active site [active] 320372006678 catalytic triad [active] 320372006679 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 320372006680 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 320372006681 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 320372006682 putative substrate binding site [chemical binding]; other site 320372006683 putative ATP binding site [chemical binding]; other site 320372006684 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 320372006685 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 320372006686 active site 320372006687 dimer interface [polypeptide binding]; other site 320372006688 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 320372006689 dimer interface [polypeptide binding]; other site 320372006690 active site 320372006691 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 320372006692 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 320372006693 Walker A/P-loop; other site 320372006694 ATP binding site [chemical binding]; other site 320372006695 Q-loop/lid; other site 320372006696 ABC transporter signature motif; other site 320372006697 Walker B; other site 320372006698 D-loop; other site 320372006699 H-loop/switch region; other site 320372006700 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 320372006701 active site 320372006702 catalytic triad [active] 320372006703 oxyanion hole [active] 320372006704 switch loop; other site 320372006705 SurA N-terminal domain; Region: SurA_N_3; cl07813 320372006706 periplasmic folding chaperone; Provisional; Region: PRK10788 320372006707 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 320372006708 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 320372006709 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 320372006710 30S subunit binding site; other site 320372006711 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 320372006712 Found in ATP-dependent protease La (LON); Region: LON; smart00464 320372006713 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 320372006714 Walker A motif; other site 320372006715 ATP binding site [chemical binding]; other site 320372006716 Walker B motif; other site 320372006717 arginine finger; other site 320372006718 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 320372006719 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 320372006720 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 320372006721 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 320372006722 Walker A motif; other site 320372006723 ATP binding site [chemical binding]; other site 320372006724 Walker B motif; other site 320372006725 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 320372006726 Clp protease; Region: CLP_protease; pfam00574 320372006727 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 320372006728 oligomer interface [polypeptide binding]; other site 320372006729 active site residues [active] 320372006730 trigger factor; Provisional; Region: tig; PRK01490 320372006731 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 320372006732 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 320372006733 Glycerate kinase family; Region: Gly_kinase; cl00841 320372006734 Transcriptional regulators [Transcription]; Region: MarR; COG1846 320372006735 MarR family; Region: MarR_2; pfam12802 320372006736 MarR family; Region: MarR_2; cl17246 320372006737 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 320372006738 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 320372006739 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 320372006740 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 320372006741 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 320372006742 dimerization interface [polypeptide binding]; other site 320372006743 DNA binding residues [nucleotide binding] 320372006744 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372006745 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 320372006746 trimer interface [polypeptide binding]; other site 320372006747 eyelet of channel; other site 320372006748 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 320372006749 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 320372006750 active site 320372006751 Zn binding site [ion binding]; other site 320372006752 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 320372006753 PLD-like domain; Region: PLDc_2; pfam13091 320372006754 putative active site [active] 320372006755 catalytic site [active] 320372006756 Avidin family; Region: Avidin; pfam01382 320372006757 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 320372006758 PAAR motif; Region: PAAR_motif; pfam05488 320372006759 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 320372006760 active site lid residues [active] 320372006761 substrate binding pocket [chemical binding]; other site 320372006762 catalytic residues [active] 320372006763 substrate-Mg2+ binding site; other site 320372006764 aspartate-rich region 1; other site 320372006765 aspartate-rich region 2; other site 320372006766 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 320372006767 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 320372006768 osmolarity response regulator; Provisional; Region: ompR; PRK09468 320372006769 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372006770 active site 320372006771 phosphorylation site [posttranslational modification] 320372006772 intermolecular recognition site; other site 320372006773 dimerization interface [polypeptide binding]; other site 320372006774 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 320372006775 DNA binding site [nucleotide binding] 320372006776 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 320372006777 HAMP domain; Region: HAMP; pfam00672 320372006778 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 320372006779 dimer interface [polypeptide binding]; other site 320372006780 phosphorylation site [posttranslational modification] 320372006781 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372006782 ATP binding site [chemical binding]; other site 320372006783 Mg2+ binding site [ion binding]; other site 320372006784 G-X-G motif; other site 320372006785 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 320372006786 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 320372006787 dimer interface [polypeptide binding]; other site 320372006788 decamer (pentamer of dimers) interface [polypeptide binding]; other site 320372006789 catalytic triad [active] 320372006790 peroxidatic and resolving cysteines [active] 320372006791 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 320372006792 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 320372006793 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 320372006794 homotrimer interaction site [polypeptide binding]; other site 320372006795 zinc binding site [ion binding]; other site 320372006796 CDP-binding sites; other site 320372006797 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 320372006798 substrate binding site; other site 320372006799 dimer interface; other site 320372006800 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 320372006801 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 320372006802 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 320372006803 ATP binding site [chemical binding]; other site 320372006804 putative Mg++ binding site [ion binding]; other site 320372006805 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 320372006806 nucleotide binding region [chemical binding]; other site 320372006807 ATP-binding site [chemical binding]; other site 320372006808 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 320372006809 acetylornithine deacetylase; Provisional; Region: PRK07522 320372006810 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 320372006811 metal binding site [ion binding]; metal-binding site 320372006812 putative dimer interface [polypeptide binding]; other site 320372006813 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 320372006814 tetramer interface [polypeptide binding]; other site 320372006815 hypothetical protein; Provisional; Region: PRK06815 320372006816 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372006817 catalytic residue [active] 320372006818 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 320372006819 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 320372006820 Transglycosylase; Region: Transgly; pfam00912 320372006821 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 320372006822 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 320372006823 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 320372006824 Tetratricopeptide repeat; Region: TPR_16; pfam13432 320372006825 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 320372006826 TPR motif; other site 320372006827 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 320372006828 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 320372006829 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 320372006830 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 320372006831 Dodecin; Region: Dodecin; pfam07311 320372006832 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372006833 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372006834 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 320372006835 putative substrate binding pocket [chemical binding]; other site 320372006836 putative dimerization interface [polypeptide binding]; other site 320372006837 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 320372006838 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 320372006839 active site 320372006840 putative substrate binding pocket [chemical binding]; other site 320372006841 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 320372006842 active site 320372006843 homotetramer interface [polypeptide binding]; other site 320372006844 Predicted membrane protein [Function unknown]; Region: COG3748 320372006845 Protein of unknown function (DUF989); Region: DUF989; pfam06181 320372006846 Cytochrome c; Region: Cytochrom_C; pfam00034 320372006847 ureidoglycolate hydrolase; Provisional; Region: PRK03606 320372006848 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 320372006849 allantoicase; Provisional; Region: PRK13257 320372006850 Allantoicase repeat; Region: Allantoicase; pfam03561 320372006851 Allantoicase repeat; Region: Allantoicase; pfam03561 320372006852 OHCU decarboxylase; Region: UHCUDC; TIGR03164 320372006853 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 320372006854 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 320372006855 active site 320372006856 catalytic site [active] 320372006857 tetramer interface [polypeptide binding]; other site 320372006858 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 320372006859 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 320372006860 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 320372006861 Na binding site [ion binding]; other site 320372006862 putative substrate binding site [chemical binding]; other site 320372006863 Transcriptional regulators [Transcription]; Region: GntR; COG1802 320372006864 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372006865 DNA-binding site [nucleotide binding]; DNA binding site 320372006866 FCD domain; Region: FCD; pfam07729 320372006867 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 320372006868 dimer interface [polypeptide binding]; other site 320372006869 catalytic triad [active] 320372006870 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 320372006871 nucleoside/Zn binding site; other site 320372006872 dimer interface [polypeptide binding]; other site 320372006873 catalytic motif [active] 320372006874 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 320372006875 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 320372006876 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 320372006877 active site 320372006878 metal binding site [ion binding]; metal-binding site 320372006879 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 320372006880 AAA domain; Region: AAA_21; pfam13304 320372006881 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372006882 ABC transporter signature motif; other site 320372006883 Walker B; other site 320372006884 D-loop; other site 320372006885 H-loop/switch region; other site 320372006886 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 320372006887 GMP synthase; Reviewed; Region: guaA; PRK00074 320372006888 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 320372006889 AMP/PPi binding site [chemical binding]; other site 320372006890 candidate oxyanion hole; other site 320372006891 catalytic triad [active] 320372006892 potential glutamine specificity residues [chemical binding]; other site 320372006893 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 320372006894 ATP Binding subdomain [chemical binding]; other site 320372006895 Ligand Binding sites [chemical binding]; other site 320372006896 Dimerization subdomain; other site 320372006897 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 320372006898 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 320372006899 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 320372006900 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 320372006901 active site 320372006902 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 320372006903 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 320372006904 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 320372006905 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 320372006906 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 320372006907 SmpB-tmRNA interface; other site 320372006908 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 320372006909 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 320372006910 phosphoenolpyruvate synthase; Validated; Region: PRK06464 320372006911 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 320372006912 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 320372006913 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 320372006914 Phytochelatin synthase; Region: Phytochelatin; pfam05023 320372006915 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 320372006916 peptidase domain interface [polypeptide binding]; other site 320372006917 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 320372006918 active site 320372006919 catalytic triad [active] 320372006920 calcium binding site [ion binding]; other site 320372006921 PEP synthetase regulatory protein; Provisional; Region: PRK05339 320372006922 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 320372006923 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 320372006924 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 320372006925 RNA/DNA hybrid binding site [nucleotide binding]; other site 320372006926 active site 320372006927 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 320372006928 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 320372006929 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 320372006930 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 320372006931 active site 320372006932 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 320372006933 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 320372006934 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 320372006935 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 320372006936 trimer interface [polypeptide binding]; other site 320372006937 active site 320372006938 UDP-GlcNAc binding site [chemical binding]; other site 320372006939 lipid binding site [chemical binding]; lipid-binding site 320372006940 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 320372006941 periplasmic chaperone; Provisional; Region: PRK10780 320372006942 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 320372006943 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 320372006944 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 320372006945 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 320372006946 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 320372006947 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 320372006948 Surface antigen; Region: Bac_surface_Ag; pfam01103 320372006949 zinc metallopeptidase RseP; Provisional; Region: PRK10779 320372006950 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 320372006951 active site 320372006952 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 320372006953 protein binding site [polypeptide binding]; other site 320372006954 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 320372006955 putative substrate binding region [chemical binding]; other site 320372006956 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 320372006957 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK12464 320372006958 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 320372006959 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 320372006960 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 320372006961 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 320372006962 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 320372006963 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 320372006964 catalytic residue [active] 320372006965 putative FPP diphosphate binding site; other site 320372006966 putative FPP binding hydrophobic cleft; other site 320372006967 dimer interface [polypeptide binding]; other site 320372006968 putative IPP diphosphate binding site; other site 320372006969 ribosome recycling factor; Reviewed; Region: frr; PRK00083 320372006970 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 320372006971 hinge region; other site 320372006972 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 320372006973 putative nucleotide binding site [chemical binding]; other site 320372006974 uridine monophosphate binding site [chemical binding]; other site 320372006975 homohexameric interface [polypeptide binding]; other site 320372006976 elongation factor Ts; Provisional; Region: tsf; PRK09377 320372006977 UBA/TS-N domain; Region: UBA; pfam00627 320372006978 Elongation factor TS; Region: EF_TS; pfam00889 320372006979 Elongation factor TS; Region: EF_TS; pfam00889 320372006980 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 320372006981 rRNA interaction site [nucleotide binding]; other site 320372006982 S8 interaction site; other site 320372006983 putative laminin-1 binding site; other site 320372006984 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 320372006985 active site 320372006986 PII uridylyl-transferase; Provisional; Region: PRK03059 320372006987 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 320372006988 metal binding triad; other site 320372006989 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 320372006990 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 320372006991 Zn2+ binding site [ion binding]; other site 320372006992 Mg2+ binding site [ion binding]; other site 320372006993 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 320372006994 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 320372006995 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 320372006996 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 320372006997 RNA binding surface [nucleotide binding]; other site 320372006998 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 320372006999 active site 320372007000 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 320372007001 active site 320372007002 catalytic residues [active] 320372007003 metal binding site [ion binding]; metal-binding site 320372007004 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 320372007005 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 320372007006 nucleotide binding pocket [chemical binding]; other site 320372007007 K-X-D-G motif; other site 320372007008 catalytic site [active] 320372007009 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 320372007010 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 320372007011 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 320372007012 Dimer interface [polypeptide binding]; other site 320372007013 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 320372007014 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 320372007015 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 320372007016 Walker A/P-loop; other site 320372007017 ATP binding site [chemical binding]; other site 320372007018 Q-loop/lid; other site 320372007019 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 320372007020 Q-loop/lid; other site 320372007021 ABC transporter signature motif; other site 320372007022 Walker B; other site 320372007023 D-loop; other site 320372007024 H-loop/switch region; other site 320372007025 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 320372007026 EamA-like transporter family; Region: EamA; pfam00892 320372007027 EamA-like transporter family; Region: EamA; pfam00892 320372007028 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 320372007029 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 320372007030 trimer interface [polypeptide binding]; other site 320372007031 active site 320372007032 substrate binding site [chemical binding]; other site 320372007033 CoA binding site [chemical binding]; other site 320372007034 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 320372007035 ArsC family; Region: ArsC; pfam03960 320372007036 putative catalytic residues [active] 320372007037 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 320372007038 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 320372007039 metal binding site [ion binding]; metal-binding site 320372007040 dimer interface [polypeptide binding]; other site 320372007041 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 320372007042 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 320372007043 S-adenosylmethionine binding site [chemical binding]; other site 320372007044 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 320372007045 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 320372007046 putative active site [active] 320372007047 catalytic site [active] 320372007048 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 320372007049 putative active site [active] 320372007050 catalytic site [active] 320372007051 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 320372007052 catalytic residues [active] 320372007053 dimer interface [polypeptide binding]; other site 320372007054 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 320372007055 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 320372007056 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 320372007057 ABC transporter; Region: ABC_tran_2; pfam12848 320372007058 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 320372007059 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 320372007060 DNA repair protein RadA; Provisional; Region: PRK11823 320372007061 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 320372007062 Walker A motif/ATP binding site; other site 320372007063 ATP binding site [chemical binding]; other site 320372007064 Walker B motif; other site 320372007065 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 320372007066 alanine racemase; Reviewed; Region: dadX; PRK03646 320372007067 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 320372007068 active site 320372007069 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 320372007070 substrate binding site [chemical binding]; other site 320372007071 catalytic residues [active] 320372007072 dimer interface [polypeptide binding]; other site 320372007073 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 320372007074 dimer interface [polypeptide binding]; other site 320372007075 substrate binding site [chemical binding]; other site 320372007076 ATP binding site [chemical binding]; other site 320372007077 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 320372007078 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 320372007079 Fe-S cluster binding site [ion binding]; other site 320372007080 active site 320372007081 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 320372007082 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 320372007083 Coenzyme A binding pocket [chemical binding]; other site 320372007084 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 320372007085 Glycoprotease family; Region: Peptidase_M22; pfam00814 320372007086 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 320372007087 acyl-CoA binding pocket [chemical binding]; other site 320372007088 CoA binding site [chemical binding]; other site 320372007089 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 320372007090 DEAD-like helicases superfamily; Region: DEXDc; smart00487 320372007091 ATP binding site [chemical binding]; other site 320372007092 Mg++ binding site [ion binding]; other site 320372007093 motif III; other site 320372007094 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 320372007095 nucleotide binding region [chemical binding]; other site 320372007096 ATP-binding site [chemical binding]; other site 320372007097 isocitrate lyase; Provisional; Region: PRK15063 320372007098 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 320372007099 tetramer interface [polypeptide binding]; other site 320372007100 active site 320372007101 Mg2+/Mn2+ binding site [ion binding]; other site 320372007102 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 320372007103 Ligand Binding Site [chemical binding]; other site 320372007104 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372007105 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 320372007106 putative effector binding pocket; other site 320372007107 dimerization interface [polypeptide binding]; other site 320372007108 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 320372007109 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 320372007110 motif II; other site 320372007111 malate synthase A; Region: malate_syn_A; TIGR01344 320372007112 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 320372007113 active site 320372007114 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 320372007115 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 320372007116 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 320372007117 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372007118 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 320372007119 Coenzyme A binding pocket [chemical binding]; other site 320372007120 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 320372007121 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 320372007122 active site 320372007123 HIGH motif; other site 320372007124 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 320372007125 active site 320372007126 KMSKS motif; other site 320372007127 hypothetical protein; Provisional; Region: PRK10279 320372007128 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 320372007129 nucleophile elbow; other site 320372007130 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 320372007131 NlpC/P60 family; Region: NLPC_P60; pfam00877 320372007132 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 320372007133 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 320372007134 Walker A/P-loop; other site 320372007135 ATP binding site [chemical binding]; other site 320372007136 Q-loop/lid; other site 320372007137 ABC transporter signature motif; other site 320372007138 Walker B; other site 320372007139 D-loop; other site 320372007140 H-loop/switch region; other site 320372007141 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 320372007142 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 320372007143 Walker A/P-loop; other site 320372007144 ATP binding site [chemical binding]; other site 320372007145 Q-loop/lid; other site 320372007146 ABC transporter signature motif; other site 320372007147 Walker B; other site 320372007148 D-loop; other site 320372007149 H-loop/switch region; other site 320372007150 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 320372007151 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 320372007152 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372007153 dimer interface [polypeptide binding]; other site 320372007154 conserved gate region; other site 320372007155 putative PBP binding loops; other site 320372007156 ABC-ATPase subunit interface; other site 320372007157 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 320372007158 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372007159 dimer interface [polypeptide binding]; other site 320372007160 conserved gate region; other site 320372007161 putative PBP binding loops; other site 320372007162 ABC-ATPase subunit interface; other site 320372007163 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 320372007164 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 320372007165 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 320372007166 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 320372007167 NAD binding site [chemical binding]; other site 320372007168 homotetramer interface [polypeptide binding]; other site 320372007169 homodimer interface [polypeptide binding]; other site 320372007170 substrate binding site [chemical binding]; other site 320372007171 active site 320372007172 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 320372007173 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 320372007174 putative [Fe4-S4] binding site [ion binding]; other site 320372007175 putative molybdopterin cofactor binding site [chemical binding]; other site 320372007176 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 320372007177 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 320372007178 putative molybdopterin cofactor binding site; other site 320372007179 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 320372007180 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 320372007181 FAD binding pocket [chemical binding]; other site 320372007182 FAD binding motif [chemical binding]; other site 320372007183 phosphate binding motif [ion binding]; other site 320372007184 beta-alpha-beta structure motif; other site 320372007185 NAD binding pocket [chemical binding]; other site 320372007186 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 320372007187 Ferredoxin [Energy production and conversion]; Region: COG1146 320372007188 4Fe-4S binding domain; Region: Fer4; cl02805 320372007189 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 320372007190 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372007191 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 320372007192 active site 320372007193 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 320372007194 argininosuccinate lyase; Provisional; Region: PRK02186 320372007195 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 320372007196 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 320372007197 active sites [active] 320372007198 tetramer interface [polypeptide binding]; other site 320372007199 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 320372007200 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372007201 catalytic residue [active] 320372007202 dimer interface [polypeptide binding]; other site 320372007203 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 320372007204 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 320372007205 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 320372007206 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 320372007207 Active Sites [active] 320372007208 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 320372007209 active site 320372007210 phosphoserine aminotransferase; Provisional; Region: PRK12462 320372007211 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372007212 catalytic residue [active] 320372007213 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 320372007214 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 320372007215 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 320372007216 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 320372007217 PYR/PP interface [polypeptide binding]; other site 320372007218 dimer interface [polypeptide binding]; other site 320372007219 TPP binding site [chemical binding]; other site 320372007220 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 320372007221 TPP-binding site [chemical binding]; other site 320372007222 dimer interface [polypeptide binding]; other site 320372007223 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 320372007224 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 320372007225 S-adenosylmethionine binding site [chemical binding]; other site 320372007226 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 320372007227 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 320372007228 active site 320372007229 iron coordination sites [ion binding]; other site 320372007230 substrate binding pocket [chemical binding]; other site 320372007231 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 320372007232 Condensation domain; Region: Condensation; pfam00668 320372007233 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372007234 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372007235 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372007236 acyl-activating enzyme (AAE) consensus motif; other site 320372007237 AMP binding site [chemical binding]; other site 320372007238 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372007239 Condensation domain; Region: Condensation; pfam00668 320372007240 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 320372007241 Condensation domain; Region: Condensation; pfam00668 320372007242 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372007243 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 320372007244 acyl-activating enzyme (AAE) consensus motif; other site 320372007245 AMP binding site [chemical binding]; other site 320372007246 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372007247 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 320372007248 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 320372007249 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 320372007250 Transmembrane secretion effector; Region: MFS_3; pfam05977 320372007251 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372007252 putative substrate translocation pore; other site 320372007253 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372007254 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 320372007255 acyl-activating enzyme (AAE) consensus motif; other site 320372007256 AMP binding site [chemical binding]; other site 320372007257 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372007258 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 320372007259 ligand-binding site [chemical binding]; other site 320372007260 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 320372007261 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372007262 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372007263 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 320372007264 Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 320372007265 active site 320372007266 catalytic triad [active] 320372007267 oxyanion hole [active] 320372007268 Autotransporter beta-domain; Region: Autotransporter; smart00869 320372007269 aspartate kinase; Reviewed; Region: PRK06635 320372007270 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 320372007271 putative nucleotide binding site [chemical binding]; other site 320372007272 putative catalytic residues [active] 320372007273 putative Mg ion binding site [ion binding]; other site 320372007274 putative aspartate binding site [chemical binding]; other site 320372007275 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 320372007276 putative allosteric regulatory site; other site 320372007277 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 320372007278 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 320372007279 Ligand Binding Site [chemical binding]; other site 320372007280 TilS substrate binding domain; Region: TilS; pfam09179 320372007281 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 320372007282 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 320372007283 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 320372007284 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 320372007285 endonuclease III; Region: ENDO3c; smart00478 320372007286 minor groove reading motif; other site 320372007287 helix-hairpin-helix signature motif; other site 320372007288 substrate binding pocket [chemical binding]; other site 320372007289 active site 320372007290 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 320372007291 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 320372007292 active site 320372007293 HIGH motif; other site 320372007294 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 320372007295 KMSKS motif; other site 320372007296 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 320372007297 tRNA binding surface [nucleotide binding]; other site 320372007298 anticodon binding site; other site 320372007299 TPR repeat; Region: TPR_11; pfam13414 320372007300 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 320372007301 binding surface 320372007302 TPR motif; other site 320372007303 Tetratricopeptide repeat; Region: TPR_16; pfam13432 320372007304 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 320372007305 substrate binding site [chemical binding]; other site 320372007306 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 320372007307 substrate binding site [chemical binding]; other site 320372007308 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 320372007309 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 320372007310 putative active site [active] 320372007311 putative metal binding site [ion binding]; other site 320372007312 serine O-acetyltransferase; Region: cysE; TIGR01172 320372007313 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 320372007314 trimer interface [polypeptide binding]; other site 320372007315 active site 320372007316 substrate binding site [chemical binding]; other site 320372007317 CoA binding site [chemical binding]; other site 320372007318 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 320372007319 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 320372007320 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 320372007321 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 320372007322 active site 320372007323 dimerization interface [polypeptide binding]; other site 320372007324 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 320372007325 MutS domain I; Region: MutS_I; pfam01624 320372007326 MutS domain II; Region: MutS_II; pfam05188 320372007327 MutS domain III; Region: MutS_III; pfam05192 320372007328 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 320372007329 Walker A/P-loop; other site 320372007330 ATP binding site [chemical binding]; other site 320372007331 Q-loop/lid; other site 320372007332 ABC transporter signature motif; other site 320372007333 Walker B; other site 320372007334 D-loop; other site 320372007335 H-loop/switch region; other site 320372007336 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 320372007337 Uncharacterized conserved protein [Function unknown]; Region: COG2850 320372007338 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 320372007339 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 320372007340 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 320372007341 dihydrodipicolinate synthase; Region: dapA; TIGR00674 320372007342 dimer interface [polypeptide binding]; other site 320372007343 active site 320372007344 catalytic residue [active] 320372007345 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 320372007346 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 320372007347 active site 320372007348 HIGH motif; other site 320372007349 dimer interface [polypeptide binding]; other site 320372007350 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 320372007351 active site 320372007352 KMSKS motif; other site 320372007353 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 320372007354 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 320372007355 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 320372007356 active site 320372007357 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 320372007358 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 320372007359 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 320372007360 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 320372007361 catalytic site [active] 320372007362 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 320372007363 dinuclear metal binding motif [ion binding]; other site 320372007364 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 320372007365 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 320372007366 trimer interface [polypeptide binding]; other site 320372007367 putative metal binding site [ion binding]; other site 320372007368 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 320372007369 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 320372007370 dimerization interface [polypeptide binding]; other site 320372007371 domain crossover interface; other site 320372007372 redox-dependent activation switch; other site 320372007373 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 320372007374 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 320372007375 enolase; Provisional; Region: eno; PRK00077 320372007376 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 320372007377 dimer interface [polypeptide binding]; other site 320372007378 metal binding site [ion binding]; metal-binding site 320372007379 substrate binding pocket [chemical binding]; other site 320372007380 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 320372007381 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 320372007382 CTP synthetase; Validated; Region: pyrG; PRK05380 320372007383 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 320372007384 Catalytic site [active] 320372007385 active site 320372007386 UTP binding site [chemical binding]; other site 320372007387 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 320372007388 active site 320372007389 putative oxyanion hole; other site 320372007390 catalytic triad [active] 320372007391 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 320372007392 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 320372007393 nucleophilic elbow; other site 320372007394 catalytic triad; other site 320372007395 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 320372007396 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 320372007397 Competence protein; Region: Competence; pfam03772 320372007398 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 320372007399 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 320372007400 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 320372007401 active site 320372007402 Protein of unknown function (DUF1602); Region: DUF1602; pfam07673 320372007403 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 320372007404 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 320372007405 FtsX-like permease family; Region: FtsX; pfam02687 320372007406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 320372007407 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 320372007408 DHH family; Region: DHH; pfam01368 320372007409 DHHA1 domain; Region: DHHA1; pfam02272 320372007410 This domain is found in peptide chain release factors; Region: PCRF; smart00937 320372007411 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 320372007412 RF-1 domain; Region: RF-1; pfam00472 320372007413 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 320372007414 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 320372007415 dimer interface [polypeptide binding]; other site 320372007416 putative anticodon binding site; other site 320372007417 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 320372007418 motif 1; other site 320372007419 active site 320372007420 motif 2; other site 320372007421 motif 3; other site 320372007422 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 320372007423 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 320372007424 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 320372007425 catalytic loop [active] 320372007426 iron binding site [ion binding]; other site 320372007427 chaperone protein HscA; Provisional; Region: hscA; PRK05183 320372007428 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 320372007429 nucleotide binding site [chemical binding]; other site 320372007430 putative NEF/HSP70 interaction site [polypeptide binding]; other site 320372007431 SBD interface [polypeptide binding]; other site 320372007432 co-chaperone HscB; Provisional; Region: hscB; PRK03578 320372007433 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 320372007434 HSP70 interaction site [polypeptide binding]; other site 320372007435 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 320372007436 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 320372007437 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 320372007438 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 320372007439 trimerization site [polypeptide binding]; other site 320372007440 active site 320372007441 cysteine desulfurase; Provisional; Region: PRK14012 320372007442 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 320372007443 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372007444 catalytic residue [active] 320372007445 Predicted transcriptional regulator [Transcription]; Region: COG1959 320372007446 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 320372007447 Low molecular weight phosphatase family; Region: LMWPc; cd00115 320372007448 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 320372007449 active site 320372007450 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 320372007451 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 320372007452 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 320372007453 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 320372007454 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 320372007455 Cysteine-rich domain; Region: CCG; pfam02754 320372007456 Cysteine-rich domain; Region: CCG; pfam02754 320372007457 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 320372007458 Transcriptional regulator [Transcription]; Region: IclR; COG1414 320372007459 Bacterial transcriptional regulator; Region: IclR; pfam01614 320372007460 Transposase domain (DUF772); Region: DUF772; pfam05598 320372007461 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 320372007462 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 320372007463 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 320372007464 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 320372007465 Phasin protein; Region: Phasin_2; pfam09361 320372007466 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 320372007467 E3 interaction surface; other site 320372007468 lipoyl attachment site [posttranslational modification]; other site 320372007469 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 320372007470 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 320372007471 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 320372007472 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 320372007473 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 320372007474 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 320372007475 E3 interaction surface; other site 320372007476 lipoyl attachment site [posttranslational modification]; other site 320372007477 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 320372007478 E3 interaction surface; other site 320372007479 lipoyl attachment site [posttranslational modification]; other site 320372007480 e3 binding domain; Region: E3_binding; pfam02817 320372007481 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 320372007482 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 320372007483 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 320372007484 dimer interface [polypeptide binding]; other site 320372007485 TPP-binding site [chemical binding]; other site 320372007486 PAS domain S-box; Region: sensory_box; TIGR00229 320372007487 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 320372007488 putative active site [active] 320372007489 heme pocket [chemical binding]; other site 320372007490 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 320372007491 dimer interface [polypeptide binding]; other site 320372007492 phosphorylation site [posttranslational modification] 320372007493 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372007494 ATP binding site [chemical binding]; other site 320372007495 Mg2+ binding site [ion binding]; other site 320372007496 G-X-G motif; other site 320372007497 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 320372007498 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372007499 active site 320372007500 phosphorylation site [posttranslational modification] 320372007501 intermolecular recognition site; other site 320372007502 dimerization interface [polypeptide binding]; other site 320372007503 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 320372007504 DNA binding residues [nucleotide binding] 320372007505 dimerization interface [polypeptide binding]; other site 320372007506 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 320372007507 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 320372007508 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 320372007509 homodimer interface [polypeptide binding]; other site 320372007510 NADP binding site [chemical binding]; other site 320372007511 substrate binding site [chemical binding]; other site 320372007512 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 320372007513 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 320372007514 active site 320372007515 Zn binding site [ion binding]; other site 320372007516 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 320372007517 active site 320372007518 DNA polymerase IV; Validated; Region: PRK02406 320372007519 DNA binding site [nucleotide binding] 320372007520 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 320372007521 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372007522 putative substrate translocation pore; other site 320372007523 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 320372007524 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372007525 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 320372007526 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 320372007527 [4Fe-4S] binding site [ion binding]; other site 320372007528 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 320372007529 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 320372007530 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 320372007531 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 320372007532 molybdopterin cofactor binding site; other site 320372007533 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 320372007534 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 320372007535 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 320372007536 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 320372007537 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 320372007538 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 320372007539 dimerization interface [polypeptide binding]; other site 320372007540 GAF domain; Region: GAF; pfam01590 320372007541 Histidine kinase; Region: HisKA_3; pfam07730 320372007542 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372007543 ATP binding site [chemical binding]; other site 320372007544 Mg2+ binding site [ion binding]; other site 320372007545 G-X-G motif; other site 320372007546 transcriptional regulator NarL; Provisional; Region: PRK10651 320372007547 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372007548 active site 320372007549 phosphorylation site [posttranslational modification] 320372007550 intermolecular recognition site; other site 320372007551 dimerization interface [polypeptide binding]; other site 320372007552 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 320372007553 DNA binding residues [nucleotide binding] 320372007554 dimerization interface [polypeptide binding]; other site 320372007555 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 320372007556 putative catalytic site [active] 320372007557 putative phosphate binding site [ion binding]; other site 320372007558 active site 320372007559 metal binding site A [ion binding]; metal-binding site 320372007560 DNA binding site [nucleotide binding] 320372007561 putative AP binding site [nucleotide binding]; other site 320372007562 putative metal binding site B [ion binding]; other site 320372007563 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 320372007564 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372007565 active site 320372007566 phosphorylation site [posttranslational modification] 320372007567 intermolecular recognition site; other site 320372007568 dimerization interface [polypeptide binding]; other site 320372007569 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 320372007570 Walker A motif; other site 320372007571 ATP binding site [chemical binding]; other site 320372007572 Walker B motif; other site 320372007573 arginine finger; other site 320372007574 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 320372007575 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 320372007576 PAS domain; Region: PAS; smart00091 320372007577 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 320372007578 dimer interface [polypeptide binding]; other site 320372007579 phosphorylation site [posttranslational modification] 320372007580 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372007581 ATP binding site [chemical binding]; other site 320372007582 Mg2+ binding site [ion binding]; other site 320372007583 G-X-G motif; other site 320372007584 glutamine synthetase; Provisional; Region: glnA; PRK09469 320372007585 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 320372007586 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 320372007587 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 320372007588 active site residue [active] 320372007589 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 320372007590 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 320372007591 putative MPT binding site; other site 320372007592 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 320372007593 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 320372007594 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 320372007595 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 320372007596 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 320372007597 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 320372007598 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 320372007599 ATP binding site [chemical binding]; other site 320372007600 putative Mg++ binding site [ion binding]; other site 320372007601 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 320372007602 nucleotide binding region [chemical binding]; other site 320372007603 ATP-binding site [chemical binding]; other site 320372007604 Helicase associated domain (HA2); Region: HA2; pfam04408 320372007605 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 320372007606 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 320372007607 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 320372007608 N-acetylglutamate synthase; Validated; Region: PRK05279 320372007609 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 320372007610 putative feedback inhibition sensing region; other site 320372007611 putative nucleotide binding site [chemical binding]; other site 320372007612 putative substrate binding site [chemical binding]; other site 320372007613 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 320372007614 Coenzyme A binding pocket [chemical binding]; other site 320372007615 oxidative damage protection protein; Provisional; Region: PRK05408 320372007616 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372007617 metabolite-proton symporter; Region: 2A0106; TIGR00883 320372007618 putative substrate translocation pore; other site 320372007619 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 320372007620 CoA-transferase family III; Region: CoA_transf_3; pfam02515 320372007621 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 320372007622 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 320372007623 active site 320372007624 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 320372007625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372007626 The 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 320372007627 dimerization interface [polypeptide binding]; other site 320372007628 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 320372007629 putative aminotransferase; Validated; Region: PRK07480 320372007630 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 320372007631 inhibitor-cofactor binding pocket; inhibition site 320372007632 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372007633 catalytic residue [active] 320372007634 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 320372007635 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 320372007636 Peptidase C26; Region: Peptidase_C26; pfam07722 320372007637 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 320372007638 catalytic triad [active] 320372007639 N-formylglutamate amidohydrolase; Region: FGase; cl01522 320372007640 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 320372007641 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 320372007642 active site 320372007643 imidazolonepropionase; Validated; Region: PRK09356 320372007644 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 320372007645 active site 320372007646 HutD; Region: HutD; pfam05962 320372007647 urocanate hydratase; Provisional; Region: PRK05414 320372007648 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 320372007649 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372007650 DNA-binding site [nucleotide binding]; DNA binding site 320372007651 UTRA domain; Region: UTRA; pfam07702 320372007652 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 320372007653 active sites [active] 320372007654 tetramer interface [polypeptide binding]; other site 320372007655 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 320372007656 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 320372007657 Autoinducer binding domain; Region: Autoind_bind; pfam03472 320372007658 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 320372007659 DNA binding residues [nucleotide binding] 320372007660 dimerization interface [polypeptide binding]; other site 320372007661 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 320372007662 ligand-binding site [chemical binding]; other site 320372007663 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 320372007664 DNA photolyase; Region: DNA_photolyase; pfam00875 320372007665 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 320372007666 Fatty acid desaturase; Region: FA_desaturase; pfam00487 320372007667 Di-iron ligands [ion binding]; other site 320372007668 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 320372007669 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 320372007670 NnrS protein; Region: NnrS; pfam05940 320372007671 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 320372007672 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 320372007673 Class III ribonucleotide reductase; Region: RNR_III; cd01675 320372007674 effector binding site; other site 320372007675 active site 320372007676 Zn binding site [ion binding]; other site 320372007677 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 320372007678 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 320372007679 FeS/SAM binding site; other site 320372007680 DGC domain; Region: DGC; pfam08859 320372007681 SCP-2 sterol transfer family; Region: SCP2; cl01225 320372007682 putative protease; Provisional; Region: PRK15447 320372007683 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 320372007684 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 320372007685 Peptidase family U32; Region: Peptidase_U32; pfam01136 320372007686 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 320372007687 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 320372007688 FMN binding site [chemical binding]; other site 320372007689 substrate binding site [chemical binding]; other site 320372007690 putative catalytic residue [active] 320372007691 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 320372007692 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 320372007693 ligand binding site [chemical binding]; other site 320372007694 flexible hinge region; other site 320372007695 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 320372007696 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 320372007697 HemN C-terminal domain; Region: HemN_C; pfam06969 320372007698 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 320372007699 dimerization interface [polypeptide binding]; other site 320372007700 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372007701 dimer interface [polypeptide binding]; other site 320372007702 putative CheW interface [polypeptide binding]; other site 320372007703 NnrS protein; Region: NnrS; pfam05940 320372007704 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 320372007705 putative ABC transporter; Region: ycf24; CHL00085 320372007706 FeS assembly ATPase SufC; Region: sufC; TIGR01978 320372007707 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 320372007708 Walker A/P-loop; other site 320372007709 ATP binding site [chemical binding]; other site 320372007710 Q-loop/lid; other site 320372007711 ABC transporter signature motif; other site 320372007712 Walker B; other site 320372007713 D-loop; other site 320372007714 H-loop/switch region; other site 320372007715 FeS assembly protein SufD; Region: sufD; TIGR01981 320372007716 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 320372007717 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 320372007718 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 320372007719 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372007720 catalytic residue [active] 320372007721 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 320372007722 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 320372007723 trimerization site [polypeptide binding]; other site 320372007724 active site 320372007725 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 320372007726 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 320372007727 Transcriptional regulator; Region: Rrf2; cl17282 320372007728 Rrf2 family protein; Region: rrf2_super; TIGR00738 320372007729 Hemerythrin; Region: Hemerythrin; cd12107 320372007730 Fe binding site [ion binding]; other site 320372007731 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 320372007732 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 320372007733 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 320372007734 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 320372007735 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 320372007736 D-pathway; other site 320372007737 Putative ubiquinol binding site [chemical binding]; other site 320372007738 Low-spin heme (heme b) binding site [chemical binding]; other site 320372007739 Putative water exit pathway; other site 320372007740 Binuclear center (heme o3/CuB) [ion binding]; other site 320372007741 K-pathway; other site 320372007742 Putative proton exit pathway; other site 320372007743 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 320372007744 Subunit I/III interface [polypeptide binding]; other site 320372007745 Subunit III/IV interface [polypeptide binding]; other site 320372007746 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 320372007747 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 320372007748 Fatty acid desaturase; Region: FA_desaturase; pfam00487 320372007749 putative di-iron ligands [ion binding]; other site 320372007750 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 320372007751 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 320372007752 substrate binding pocket [chemical binding]; other site 320372007753 membrane-bound complex binding site; other site 320372007754 hinge residues; other site 320372007755 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 320372007756 dimer interface [polypeptide binding]; other site 320372007757 N-terminal domain interface [polypeptide binding]; other site 320372007758 substrate binding pocket (H-site) [chemical binding]; other site 320372007759 succinylglutamate desuccinylase; Provisional; Region: PRK05324 320372007760 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 320372007761 active site 320372007762 Zn binding site [ion binding]; other site 320372007763 succinylarginine dihydrolase; Provisional; Region: PRK13281 320372007764 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 320372007765 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 320372007766 NAD(P) binding site [chemical binding]; other site 320372007767 catalytic residues [active] 320372007768 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 320372007769 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 320372007770 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 320372007771 arginine/ornithine succinyltransferase, alpha subunit; Region: arg_AOST_alph; TIGR03245 320372007772 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 320372007773 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 320372007774 inhibitor-cofactor binding pocket; inhibition site 320372007775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372007776 catalytic residue [active] 320372007777 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 320372007778 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 320372007779 conserved cys residue [active] 320372007780 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372007781 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372007782 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 320372007783 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 320372007784 Walker A/P-loop; other site 320372007785 ATP binding site [chemical binding]; other site 320372007786 Q-loop/lid; other site 320372007787 ABC transporter signature motif; other site 320372007788 Walker B; other site 320372007789 D-loop; other site 320372007790 H-loop/switch region; other site 320372007791 Protein of unknown function (DUF1602); Region: DUF1602; pfam07673 320372007792 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 320372007793 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372007794 dimer interface [polypeptide binding]; other site 320372007795 conserved gate region; other site 320372007796 putative PBP binding loops; other site 320372007797 ABC-ATPase subunit interface; other site 320372007798 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 320372007799 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372007800 dimer interface [polypeptide binding]; other site 320372007801 conserved gate region; other site 320372007802 putative PBP binding loops; other site 320372007803 ABC-ATPase subunit interface; other site 320372007804 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 320372007805 putative membrane protein; Region: HpnL; TIGR03476 320372007806 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 320372007807 putative active site [active] 320372007808 YdjC motif; other site 320372007809 Mg binding site [ion binding]; other site 320372007810 putative homodimer interface [polypeptide binding]; other site 320372007811 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 320372007812 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 320372007813 B12 binding site [chemical binding]; other site 320372007814 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 320372007815 FeS/SAM binding site; other site 320372007816 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 320372007817 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 320372007818 ligand binding site; other site 320372007819 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 320372007820 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 320372007821 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 320372007822 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 320372007823 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 320372007824 pyridoxamine kinase; Validated; Region: PRK05756 320372007825 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 320372007826 dimer interface [polypeptide binding]; other site 320372007827 pyridoxal binding site [chemical binding]; other site 320372007828 ATP binding site [chemical binding]; other site 320372007829 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 320372007830 Phosphoesterase family; Region: Phosphoesterase; pfam04185 320372007831 Domain of unknown function (DUF756); Region: DUF756; pfam05506 320372007832 Domain of unknown function (DUF756); Region: DUF756; pfam05506 320372007833 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 320372007834 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 320372007835 dimerization interface [polypeptide binding]; other site 320372007836 ligand binding site [chemical binding]; other site 320372007837 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 320372007838 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 320372007839 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 320372007840 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372007841 putative ADP-binding pocket [chemical binding]; other site 320372007842 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 320372007843 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 320372007844 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 320372007845 Walker A/P-loop; other site 320372007846 ATP binding site [chemical binding]; other site 320372007847 Q-loop/lid; other site 320372007848 ABC transporter signature motif; other site 320372007849 Walker B; other site 320372007850 D-loop; other site 320372007851 H-loop/switch region; other site 320372007852 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 320372007853 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 320372007854 active site 320372007855 homotetramer interface [polypeptide binding]; other site 320372007856 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 320372007857 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 320372007858 active site 320372007859 motif I; other site 320372007860 motif II; other site 320372007861 Protein of unknown function (DUF461); Region: DUF461; pfam04314 320372007862 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 320372007863 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 320372007864 Pirin-related protein [General function prediction only]; Region: COG1741 320372007865 Pirin; Region: Pirin; pfam02678 320372007866 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 320372007867 LysR family transcriptional regulator; Provisional; Region: PRK14997 320372007868 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372007869 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 320372007870 putative effector binding pocket; other site 320372007871 putative dimerization interface [polypeptide binding]; other site 320372007872 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 320372007873 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 320372007874 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 320372007875 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 320372007876 GIY-YIG motif/motif A; other site 320372007877 active site 320372007878 catalytic site [active] 320372007879 putative DNA binding site [nucleotide binding]; other site 320372007880 metal binding site [ion binding]; metal-binding site 320372007881 UvrB/uvrC motif; Region: UVR; pfam02151 320372007882 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 320372007883 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 320372007884 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 320372007885 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 320372007886 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 320372007887 elongation factor P; Validated; Region: PRK00529 320372007888 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 320372007889 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 320372007890 RNA binding site [nucleotide binding]; other site 320372007891 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 320372007892 RNA binding site [nucleotide binding]; other site 320372007893 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 320372007894 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372007895 active site 320372007896 phosphorylation site [posttranslational modification] 320372007897 intermolecular recognition site; other site 320372007898 dimerization interface [polypeptide binding]; other site 320372007899 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 320372007900 Walker A motif; other site 320372007901 ATP binding site [chemical binding]; other site 320372007902 Walker B motif; other site 320372007903 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 320372007904 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 320372007905 beta-hexosaminidase; Provisional; Region: PRK05337 320372007906 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 320372007907 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 320372007908 active site 320372007909 hydrophilic channel; other site 320372007910 dimerization interface [polypeptide binding]; other site 320372007911 catalytic residues [active] 320372007912 active site lid [active] 320372007913 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 320372007914 Recombination protein O N terminal; Region: RecO_N; pfam11967 320372007915 Recombination protein O C terminal; Region: RecO_C; pfam02565 320372007916 GTPase Era; Reviewed; Region: era; PRK00089 320372007917 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 320372007918 G1 box; other site 320372007919 GTP/Mg2+ binding site [chemical binding]; other site 320372007920 Switch I region; other site 320372007921 G2 box; other site 320372007922 Switch II region; other site 320372007923 G3 box; other site 320372007924 G4 box; other site 320372007925 G5 box; other site 320372007926 KH domain; Region: KH_2; pfam07650 320372007927 ribonuclease III; Provisional; Region: PRK14718 320372007928 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 320372007929 dimerization interface [polypeptide binding]; other site 320372007930 active site 320372007931 metal binding site [ion binding]; metal-binding site 320372007932 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 320372007933 signal peptidase I; Provisional; Region: PRK10861 320372007934 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 320372007935 Catalytic site [active] 320372007936 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 320372007937 GTP-binding protein LepA; Provisional; Region: PRK05433 320372007938 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 320372007939 G1 box; other site 320372007940 putative GEF interaction site [polypeptide binding]; other site 320372007941 GTP/Mg2+ binding site [chemical binding]; other site 320372007942 Switch I region; other site 320372007943 G2 box; other site 320372007944 G3 box; other site 320372007945 Switch II region; other site 320372007946 G4 box; other site 320372007947 G5 box; other site 320372007948 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 320372007949 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 320372007950 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 320372007951 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 320372007952 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 320372007953 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 320372007954 protein binding site [polypeptide binding]; other site 320372007955 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 320372007956 protein binding site [polypeptide binding]; other site 320372007957 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 320372007958 anti-sigma E factor; Provisional; Region: rseB; PRK09455 320372007959 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 320372007960 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 320372007961 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 320372007962 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 320372007963 DNA binding residues [nucleotide binding] 320372007964 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 320372007965 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 320372007966 dimer interface [polypeptide binding]; other site 320372007967 active site 320372007968 acyl carrier protein; Provisional; Region: acpP; PRK00982 320372007969 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 320372007970 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 320372007971 NAD(P) binding site [chemical binding]; other site 320372007972 homotetramer interface [polypeptide binding]; other site 320372007973 homodimer interface [polypeptide binding]; other site 320372007974 active site 320372007975 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 320372007976 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 320372007977 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 320372007978 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 320372007979 dimer interface [polypeptide binding]; other site 320372007980 active site 320372007981 CoA binding pocket [chemical binding]; other site 320372007982 putative phosphate acyltransferase; Provisional; Region: PRK05331 320372007983 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 320372007984 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 320372007985 Maf-like protein; Region: Maf; pfam02545 320372007986 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 320372007987 active site 320372007988 dimer interface [polypeptide binding]; other site 320372007989 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 320372007990 putative SAM binding site [chemical binding]; other site 320372007991 homodimer interface [polypeptide binding]; other site 320372007992 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 320372007993 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 320372007994 tandem repeat interface [polypeptide binding]; other site 320372007995 oligomer interface [polypeptide binding]; other site 320372007996 active site residues [active] 320372007997 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 320372007998 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 320372007999 motif II; other site 320372008000 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 320372008001 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 320372008002 RNA binding surface [nucleotide binding]; other site 320372008003 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 320372008004 active site 320372008005 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 320372008006 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 320372008007 homodimer interface [polypeptide binding]; other site 320372008008 oligonucleotide binding site [chemical binding]; other site 320372008009 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 320372008010 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 320372008011 FeS/SAM binding site; other site 320372008012 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 320372008013 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 320372008014 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 320372008015 GTP binding site; other site 320372008016 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 320372008017 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 320372008018 dimer interface [polypeptide binding]; other site 320372008019 putative functional site; other site 320372008020 putative MPT binding site; other site 320372008021 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 320372008022 RmuC family; Region: RmuC; pfam02646 320372008023 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 320372008024 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 320372008025 dimerization interface [polypeptide binding]; other site 320372008026 ligand binding site [chemical binding]; other site 320372008027 NADP binding site [chemical binding]; other site 320372008028 catalytic site [active] 320372008029 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 320372008030 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 320372008031 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 320372008032 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 320372008033 active site 320372008034 Ferredoxin [Energy production and conversion]; Region: COG1146 320372008035 4Fe-4S binding domain; Region: Fer4; cl02805 320372008036 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 320372008037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 320372008038 CreA protein; Region: CreA; pfam05981 320372008039 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 320372008040 S4 domain; Region: S4_2; pfam13275 320372008041 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 320372008042 multidrug efflux protein; Reviewed; Region: PRK01766 320372008043 cation binding site [ion binding]; other site 320372008044 fumarate hydratase; Reviewed; Region: fumC; PRK00485 320372008045 Class II fumarases; Region: Fumarase_classII; cd01362 320372008046 active site 320372008047 tetramer interface [polypeptide binding]; other site 320372008048 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 320372008049 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 320372008050 dimerization interface [polypeptide binding]; other site 320372008051 putative DNA binding site [nucleotide binding]; other site 320372008052 putative Zn2+ binding site [ion binding]; other site 320372008053 FecR protein; Region: FecR; pfam04773 320372008054 thymidylate synthase; Provisional; Region: thyA; PRK13821 320372008055 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 320372008056 dimerization interface [polypeptide binding]; other site 320372008057 active site 320372008058 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 320372008059 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 320372008060 Walker A motif; other site 320372008061 ATP binding site [chemical binding]; other site 320372008062 Walker B motif; other site 320372008063 arginine finger; other site 320372008064 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 320372008065 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 320372008066 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 320372008067 Walker A motif; other site 320372008068 ATP binding site [chemical binding]; other site 320372008069 Walker B motif; other site 320372008070 arginine finger; other site 320372008071 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 320372008072 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 320372008073 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 320372008074 folate binding site [chemical binding]; other site 320372008075 NADP+ binding site [chemical binding]; other site 320372008076 Transposase domain (DUF772); Region: DUF772; pfam05598 320372008077 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 320372008078 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 320372008079 peptidase PmbA; Provisional; Region: PRK11040 320372008080 hypothetical protein; Provisional; Region: PRK05255 320372008081 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 320372008082 MPT binding site; other site 320372008083 trimer interface [polypeptide binding]; other site 320372008084 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 320372008085 catalytic site [active] 320372008086 putative active site [active] 320372008087 putative substrate binding site [chemical binding]; other site 320372008088 dimer interface [polypeptide binding]; other site 320372008089 Peptidase family M48; Region: Peptidase_M48; pfam01435 320372008090 GTPase RsgA; Reviewed; Region: PRK00098 320372008091 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 320372008092 RNA binding site [nucleotide binding]; other site 320372008093 homodimer interface [polypeptide binding]; other site 320372008094 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 320372008095 GTPase/Zn-binding domain interface [polypeptide binding]; other site 320372008096 GTP/Mg2+ binding site [chemical binding]; other site 320372008097 G4 box; other site 320372008098 G5 box; other site 320372008099 G1 box; other site 320372008100 Switch I region; other site 320372008101 G2 box; other site 320372008102 G3 box; other site 320372008103 Switch II region; other site 320372008104 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 320372008105 CobD/CbiB family protein; Provisional; Region: PRK07630 320372008106 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 320372008107 putative active site [active] 320372008108 putative CoA binding site [chemical binding]; other site 320372008109 nudix motif; other site 320372008110 metal binding site [ion binding]; metal-binding site 320372008111 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 320372008112 Coenzyme A binding pocket [chemical binding]; other site 320372008113 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 320372008114 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 320372008115 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 320372008116 RimM N-terminal domain; Region: RimM; pfam01782 320372008117 PRC-barrel domain; Region: PRC; pfam05239 320372008118 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 320372008119 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 320372008120 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 320372008121 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 320372008122 FeS/SAM binding site; other site 320372008123 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 320372008124 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 320372008125 AsnC family; Region: AsnC_trans_reg; pfam01037 320372008126 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 320372008127 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 320372008128 hydroxyglutarate oxidase; Provisional; Region: PRK11728 320372008129 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 320372008130 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 320372008131 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 320372008132 active site 320372008133 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 320372008134 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 320372008135 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 320372008136 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 320372008137 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 320372008138 Ligand binding site [chemical binding]; other site 320372008139 Electron transfer flavoprotein domain; Region: ETF; pfam01012 320372008140 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 320372008141 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 320372008142 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372008143 dimer interface [polypeptide binding]; other site 320372008144 conserved gate region; other site 320372008145 ABC-ATPase subunit interface; other site 320372008146 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 320372008147 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 320372008148 Walker A/P-loop; other site 320372008149 ATP binding site [chemical binding]; other site 320372008150 Q-loop/lid; other site 320372008151 ABC transporter signature motif; other site 320372008152 Walker B; other site 320372008153 D-loop; other site 320372008154 H-loop/switch region; other site 320372008155 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 320372008156 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 320372008157 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 320372008158 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 320372008159 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 320372008160 putative active site [active] 320372008161 Zn binding site [ion binding]; other site 320372008162 Transglycosylase SLT domain; Region: SLT_2; pfam13406 320372008163 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 320372008164 N-acetyl-D-glucosamine binding site [chemical binding]; other site 320372008165 catalytic residue [active] 320372008166 cysteine synthase B; Region: cysM; TIGR01138 320372008167 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 320372008168 dimer interface [polypeptide binding]; other site 320372008169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372008170 catalytic residue [active] 320372008171 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 320372008172 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 320372008173 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 320372008174 NADP binding site [chemical binding]; other site 320372008175 homopentamer interface [polypeptide binding]; other site 320372008176 substrate binding site [chemical binding]; other site 320372008177 active site 320372008178 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 320372008179 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 320372008180 putative ribose interaction site [chemical binding]; other site 320372008181 putative ADP binding site [chemical binding]; other site 320372008182 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 320372008183 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 320372008184 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 320372008185 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 320372008186 tetratricopeptide repeat protein; Provisional; Region: PRK11788 320372008187 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 320372008188 binding surface 320372008189 TPR motif; other site 320372008190 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 320372008191 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 320372008192 IHF dimer interface [polypeptide binding]; other site 320372008193 IHF - DNA interface [nucleotide binding]; other site 320372008194 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 320372008195 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 320372008196 RNA binding site [nucleotide binding]; other site 320372008197 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 320372008198 RNA binding site [nucleotide binding]; other site 320372008199 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 320372008200 RNA binding site [nucleotide binding]; other site 320372008201 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 320372008202 RNA binding site [nucleotide binding]; other site 320372008203 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 320372008204 RNA binding site [nucleotide binding]; other site 320372008205 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 320372008206 RNA binding site [nucleotide binding]; other site 320372008207 cytidylate kinase; Provisional; Region: cmk; PRK00023 320372008208 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 320372008209 CMP-binding site; other site 320372008210 The sites determining sugar specificity; other site 320372008211 bifunctional prephenate dehydrogenase/3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK11861 320372008212 prephenate dehydrogenase; Validated; Region: PRK08507 320372008213 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 320372008214 hinge; other site 320372008215 active site 320372008216 Chorismate mutase type II; Region: CM_2; smart00830 320372008217 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 320372008218 Prephenate dehydratase; Region: PDT; pfam00800 320372008219 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 320372008220 putative L-Phe binding site [chemical binding]; other site 320372008221 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 320372008222 homodimer interface [polypeptide binding]; other site 320372008223 substrate-cofactor binding pocket; other site 320372008224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372008225 catalytic residue [active] 320372008226 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 320372008227 DNA gyrase subunit A; Validated; Region: PRK05560 320372008228 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 320372008229 CAP-like domain; other site 320372008230 active site 320372008231 primary dimer interface [polypeptide binding]; other site 320372008232 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 320372008233 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 320372008234 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 320372008235 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 320372008236 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 320372008237 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 320372008238 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 320372008239 ligand binding site [chemical binding]; other site 320372008240 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 320372008241 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 320372008242 S-adenosylmethionine binding site [chemical binding]; other site 320372008243 phosphoglycolate phosphatase; Provisional; Region: PRK13226 320372008244 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 320372008245 motif II; other site 320372008246 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 320372008247 S-adenosylmethionine binding site [chemical binding]; other site 320372008248 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 320372008249 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 320372008250 PBP superfamily domain; Region: PBP_like; pfam12727 320372008251 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 320372008252 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 320372008253 putative dimer interface [polypeptide binding]; other site 320372008254 [2Fe-2S] cluster binding site [ion binding]; other site 320372008255 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 320372008256 putative dimer interface [polypeptide binding]; other site 320372008257 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 320372008258 SLBB domain; Region: SLBB; pfam10531 320372008259 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 320372008260 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 320372008261 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 320372008262 catalytic loop [active] 320372008263 iron binding site [ion binding]; other site 320372008264 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 320372008265 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 320372008266 [4Fe-4S] binding site [ion binding]; other site 320372008267 molybdopterin cofactor binding site; other site 320372008268 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 320372008269 molybdopterin cofactor binding site; other site 320372008270 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 320372008271 hypothetical protein; Provisional; Region: PRK06184 320372008272 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 320372008273 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 320372008274 TPR repeat; Region: TPR_11; pfam13414 320372008275 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 320372008276 binding surface 320372008277 TPR motif; other site 320372008278 TPR repeat; Region: TPR_11; pfam13414 320372008279 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 320372008280 TPR repeat; Region: TPR_11; pfam13414 320372008281 TPR motif; other site 320372008282 binding surface 320372008283 TPR repeat; Region: TPR_11; pfam13414 320372008284 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 320372008285 binding surface 320372008286 TPR motif; other site 320372008287 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 320372008288 citrate-proton symporter; Provisional; Region: PRK15075 320372008289 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372008290 putative substrate translocation pore; other site 320372008291 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 320372008292 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 320372008293 catalytic triad [active] 320372008294 disulfide bond formation protein B; Provisional; Region: PRK02110 320372008295 amidase; Provisional; Region: PRK07056 320372008296 Amidase; Region: Amidase; cl11426 320372008297 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 320372008298 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 320372008299 XdhC Rossmann domain; Region: XdhC_C; pfam13478 320372008300 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 320372008301 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 320372008302 active site 320372008303 purine riboside binding site [chemical binding]; other site 320372008304 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 320372008305 guanine deaminase; Provisional; Region: PRK09228 320372008306 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 320372008307 active site 320372008308 Predicted membrane protein [Function unknown]; Region: COG2119 320372008309 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 320372008310 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 320372008311 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 320372008312 aminopeptidase N; Provisional; Region: pepN; PRK14015 320372008313 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 320372008314 active site 320372008315 Zn binding site [ion binding]; other site 320372008316 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 320372008317 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 320372008318 THF binding site; other site 320372008319 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 320372008320 substrate binding site [chemical binding]; other site 320372008321 THF binding site; other site 320372008322 zinc-binding site [ion binding]; other site 320372008323 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 320372008324 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372008325 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 320372008326 putative dimerization interface [polypeptide binding]; other site 320372008327 fructose-1,6-bisphosphatase family protein; Region: PLN02628 320372008328 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 320372008329 AMP binding site [chemical binding]; other site 320372008330 metal binding site [ion binding]; metal-binding site 320372008331 active site 320372008332 BNR repeat-like domain; Region: BNR_2; pfam13088 320372008333 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 320372008334 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 320372008335 N-terminal plug; other site 320372008336 ligand-binding site [chemical binding]; other site 320372008337 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 320372008338 chorismate mutase; Provisional; Region: PRK09269 320372008339 Chorismate mutase type II; Region: CM_2; cl00693 320372008340 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 320372008341 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 320372008342 active site 320372008343 catalytic site [active] 320372008344 substrate binding site [chemical binding]; other site 320372008345 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 320372008346 GIY-YIG motif/motif A; other site 320372008347 active site 320372008348 catalytic site [active] 320372008349 putative DNA binding site [nucleotide binding]; other site 320372008350 metal binding site [ion binding]; metal-binding site 320372008351 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 320372008352 DNA-binding site [nucleotide binding]; DNA binding site 320372008353 RNA-binding motif; other site 320372008354 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372008355 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 320372008356 trimer interface [polypeptide binding]; other site 320372008357 eyelet of channel; other site 320372008358 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 320372008359 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 320372008360 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 320372008361 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 320372008362 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 320372008363 Zn2+ binding site [ion binding]; other site 320372008364 Mg2+ binding site [ion binding]; other site 320372008365 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 320372008366 synthetase active site [active] 320372008367 NTP binding site [chemical binding]; other site 320372008368 metal binding site [ion binding]; metal-binding site 320372008369 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 320372008370 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 320372008371 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 320372008372 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 320372008373 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 320372008374 catalytic site [active] 320372008375 G-X2-G-X-G-K; other site 320372008376 hypothetical protein; Provisional; Region: PRK11820 320372008377 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 320372008378 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 320372008379 ribonuclease PH; Reviewed; Region: rph; PRK00173 320372008380 Ribonuclease PH; Region: RNase_PH_bact; cd11362 320372008381 hexamer interface [polypeptide binding]; other site 320372008382 active site 320372008383 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 320372008384 active site 320372008385 dimerization interface [polypeptide binding]; other site 320372008386 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 320372008387 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 320372008388 FeS/SAM binding site; other site 320372008389 HemN C-terminal domain; Region: HemN_C; pfam06969 320372008390 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 320372008391 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372008392 metabolite-proton symporter; Region: 2A0106; TIGR00883 320372008393 putative substrate translocation pore; other site 320372008394 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 320372008395 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 320372008396 putative active site [active] 320372008397 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 320372008398 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 320372008399 putative ion selectivity filter; other site 320372008400 putative pore gating glutamate residue; other site 320372008401 putative H+/Cl- coupling transport residue; other site 320372008402 cell division topological specificity factor MinE; Provisional; Region: PRK13989 320372008403 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 320372008404 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 320372008405 Switch I; other site 320372008406 Switch II; other site 320372008407 septum formation inhibitor; Reviewed; Region: PRK01973 320372008408 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 320372008409 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 320372008410 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 320372008411 Coenzyme A binding pocket [chemical binding]; other site 320372008412 seryl-tRNA synthetase; Provisional; Region: PRK05431 320372008413 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 320372008414 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 320372008415 dimer interface [polypeptide binding]; other site 320372008416 active site 320372008417 motif 1; other site 320372008418 motif 2; other site 320372008419 motif 3; other site 320372008420 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 320372008421 recombination factor protein RarA; Reviewed; Region: PRK13342 320372008422 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 320372008423 Walker A motif; other site 320372008424 ATP binding site [chemical binding]; other site 320372008425 Walker B motif; other site 320372008426 arginine finger; other site 320372008427 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 320372008428 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 320372008429 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 320372008430 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 320372008431 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 320372008432 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 320372008433 thioredoxin reductase; Provisional; Region: PRK10262 320372008434 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 320372008435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 320372008436 Smr domain; Region: Smr; pfam01713 320372008437 Predicted membrane protein [Function unknown]; Region: COG2860 320372008438 UPF0126 domain; Region: UPF0126; pfam03458 320372008439 UPF0126 domain; Region: UPF0126; pfam03458 320372008440 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 320372008441 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 320372008442 Walker A/P-loop; other site 320372008443 ATP binding site [chemical binding]; other site 320372008444 Q-loop/lid; other site 320372008445 ABC transporter signature motif; other site 320372008446 Walker B; other site 320372008447 D-loop; other site 320372008448 H-loop/switch region; other site 320372008449 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 320372008450 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372008451 dimer interface [polypeptide binding]; other site 320372008452 conserved gate region; other site 320372008453 putative PBP binding loops; other site 320372008454 ABC-ATPase subunit interface; other site 320372008455 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372008456 dimer interface [polypeptide binding]; other site 320372008457 conserved gate region; other site 320372008458 putative PBP binding loops; other site 320372008459 ABC-ATPase subunit interface; other site 320372008460 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 320372008461 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 320372008462 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 320372008463 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 320372008464 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 320372008465 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 320372008466 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 320372008467 putative active site [active] 320372008468 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 320372008469 glucokinase; Provisional; Region: glk; PRK00292 320372008470 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 320372008471 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 320372008472 putative active site [active] 320372008473 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 320372008474 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 320372008475 substrate binding pocket [chemical binding]; other site 320372008476 membrane-bound complex binding site; other site 320372008477 hinge residues; other site 320372008478 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 320372008479 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372008480 dimer interface [polypeptide binding]; other site 320372008481 conserved gate region; other site 320372008482 putative PBP binding loops; other site 320372008483 ABC-ATPase subunit interface; other site 320372008484 Protein of unknown function (DUF1602); Region: DUF1602; pfam07673 320372008485 D-cysteine desulfhydrase; Validated; Region: PRK03910 320372008486 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 320372008487 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372008488 catalytic residue [active] 320372008489 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 320372008490 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372008491 putative substrate translocation pore; other site 320372008492 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 320372008493 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 320372008494 inhibitor-cofactor binding pocket; inhibition site 320372008495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372008496 catalytic residue [active] 320372008497 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 320372008498 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 320372008499 catalytic motif [active] 320372008500 Zn binding site [ion binding]; other site 320372008501 RibD C-terminal domain; Region: RibD_C; cl17279 320372008502 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 320372008503 Lumazine binding domain; Region: Lum_binding; pfam00677 320372008504 Lumazine binding domain; Region: Lum_binding; pfam00677 320372008505 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 320372008506 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 320372008507 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 320372008508 dimerization interface [polypeptide binding]; other site 320372008509 active site 320372008510 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 320372008511 homopentamer interface [polypeptide binding]; other site 320372008512 active site 320372008513 aminotransferase; Validated; Region: PRK07337 320372008514 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 320372008515 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372008516 homodimer interface [polypeptide binding]; other site 320372008517 catalytic residue [active] 320372008518 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 320372008519 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 320372008520 N-acetyl-D-glucosamine binding site [chemical binding]; other site 320372008521 catalytic residue [active] 320372008522 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 320372008523 LysE type translocator; Region: LysE; cl00565 320372008524 serine racemase; Region: PLN02970 320372008525 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 320372008526 tetramer interface [polypeptide binding]; other site 320372008527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372008528 catalytic residue [active] 320372008529 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 320372008530 YGGT family; Region: YGGT; pfam02325 320372008531 YGGT family; Region: YGGT; pfam02325 320372008532 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 320372008533 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 320372008534 active site 320372008535 catalytic triad [active] 320372008536 calcium binding site [ion binding]; other site 320372008537 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 320372008538 Methyltransferase domain; Region: Methyltransf_31; pfam13847 320372008539 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 320372008540 S-adenosylmethionine binding site [chemical binding]; other site 320372008541 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 320372008542 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 320372008543 S-adenosylmethionine binding site [chemical binding]; other site 320372008544 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 320372008545 Flagellin N-methylase; Region: FliB; cl00497 320372008546 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 320372008547 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 320372008548 FeS/SAM binding site; other site 320372008549 HemN C-terminal domain; Region: HemN_C; pfam06969 320372008550 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 320372008551 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 320372008552 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 320372008553 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 320372008554 active site residue [active] 320372008555 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 320372008556 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 320372008557 inhibitor-cofactor binding pocket; inhibition site 320372008558 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372008559 catalytic residue [active] 320372008560 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 320372008561 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 320372008562 putative ligand binding site [chemical binding]; other site 320372008563 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 320372008564 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 320372008565 TM-ABC transporter signature motif; other site 320372008566 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 320372008567 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 320372008568 TM-ABC transporter signature motif; other site 320372008569 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 320372008570 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 320372008571 Walker A/P-loop; other site 320372008572 ATP binding site [chemical binding]; other site 320372008573 Q-loop/lid; other site 320372008574 ABC transporter signature motif; other site 320372008575 Walker B; other site 320372008576 D-loop; other site 320372008577 H-loop/switch region; other site 320372008578 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 320372008579 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 320372008580 Walker A/P-loop; other site 320372008581 ATP binding site [chemical binding]; other site 320372008582 Q-loop/lid; other site 320372008583 ABC transporter signature motif; other site 320372008584 Walker B; other site 320372008585 D-loop; other site 320372008586 H-loop/switch region; other site 320372008587 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 320372008588 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 320372008589 alpha-gamma subunit interface [polypeptide binding]; other site 320372008590 beta-gamma subunit interface [polypeptide binding]; other site 320372008591 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 320372008592 gamma-beta subunit interface [polypeptide binding]; other site 320372008593 alpha-beta subunit interface [polypeptide binding]; other site 320372008594 urease subunit alpha; Reviewed; Region: ureC; PRK13207 320372008595 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 320372008596 subunit interactions [polypeptide binding]; other site 320372008597 active site 320372008598 flap region; other site 320372008599 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 320372008600 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 320372008601 dimer interface [polypeptide binding]; other site 320372008602 catalytic residues [active] 320372008603 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 320372008604 UreF; Region: UreF; pfam01730 320372008605 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 320372008606 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 320372008607 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 320372008608 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 320372008609 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 320372008610 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 320372008611 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 320372008612 putative active site [active] 320372008613 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 320372008614 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 320372008615 active site 320372008616 substrate binding site [chemical binding]; other site 320372008617 metal binding site [ion binding]; metal-binding site 320372008618 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 320372008619 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 320372008620 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 320372008621 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 320372008622 active site 320372008623 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 320372008624 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372008625 putative ADP-binding pocket [chemical binding]; other site 320372008626 UDP-glucose 4-epimerase; Region: PLN02240 320372008627 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 320372008628 NAD binding site [chemical binding]; other site 320372008629 homodimer interface [polypeptide binding]; other site 320372008630 active site 320372008631 substrate binding site [chemical binding]; other site 320372008632 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 320372008633 Mg++ binding site [ion binding]; other site 320372008634 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 320372008635 putative catalytic motif [active] 320372008636 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 320372008637 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 320372008638 NAD(P) binding site [chemical binding]; other site 320372008639 homodimer interface [polypeptide binding]; other site 320372008640 substrate binding site [chemical binding]; other site 320372008641 active site 320372008642 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 320372008643 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 320372008644 Mg++ binding site [ion binding]; other site 320372008645 putative catalytic motif [active] 320372008646 putative substrate binding site [chemical binding]; other site 320372008647 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 320372008648 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 320372008649 putative NAD(P) binding site [chemical binding]; other site 320372008650 active site 320372008651 putative substrate binding site [chemical binding]; other site 320372008652 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 320372008653 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 320372008654 Probable Catalytic site; other site 320372008655 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 320372008656 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 320372008657 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 320372008658 Probable Catalytic site; other site 320372008659 metal-binding site 320372008660 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 320372008661 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 320372008662 active site 320372008663 Methyltransferase domain; Region: Methyltransf_23; pfam13489 320372008664 Methyltransferase domain; Region: Methyltransf_12; pfam08242 320372008665 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 320372008666 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 320372008667 active site 320372008668 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 320372008669 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 320372008670 Probable Catalytic site; other site 320372008671 metal-binding site 320372008672 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 320372008673 extended (e) SDRs; Region: SDR_e; cd08946 320372008674 NAD(P) binding site [chemical binding]; other site 320372008675 active site 320372008676 substrate binding site [chemical binding]; other site 320372008677 Acyltransferase family; Region: Acyl_transf_3; pfam01757 320372008678 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 320372008679 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 320372008680 Walker A/P-loop; other site 320372008681 ATP binding site [chemical binding]; other site 320372008682 Q-loop/lid; other site 320372008683 ABC transporter signature motif; other site 320372008684 Walker B; other site 320372008685 D-loop; other site 320372008686 H-loop/switch region; other site 320372008687 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 320372008688 putative carbohydrate binding site [chemical binding]; other site 320372008689 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 320372008690 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 320372008691 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 320372008692 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 320372008693 NADP binding site [chemical binding]; other site 320372008694 active site 320372008695 putative substrate binding site [chemical binding]; other site 320372008696 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 320372008697 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 320372008698 substrate binding site; other site 320372008699 tetramer interface; other site 320372008700 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 320372008701 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 320372008702 NAD binding site [chemical binding]; other site 320372008703 substrate binding site [chemical binding]; other site 320372008704 homodimer interface [polypeptide binding]; other site 320372008705 active site 320372008706 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 320372008707 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 320372008708 active site 320372008709 metal binding site [ion binding]; metal-binding site 320372008710 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 320372008711 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 320372008712 putative acyl-acceptor binding pocket; other site 320372008713 dihydroorotase; Provisional; Region: PRK07627 320372008714 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 320372008715 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 320372008716 active site 320372008717 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 320372008718 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 320372008719 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 320372008720 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 320372008721 active site 320372008722 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 320372008723 hypothetical protein; Validated; Region: PRK00228 320372008724 Rubredoxin [Energy production and conversion]; Region: COG1773 320372008725 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 320372008726 iron binding site [ion binding]; other site 320372008727 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 320372008728 dimer interface [polypeptide binding]; other site 320372008729 substrate binding site [chemical binding]; other site 320372008730 ATP binding site [chemical binding]; other site 320372008731 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 320372008732 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 320372008733 ring oligomerisation interface [polypeptide binding]; other site 320372008734 ATP/Mg binding site [chemical binding]; other site 320372008735 stacking interactions; other site 320372008736 hinge regions; other site 320372008737 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 320372008738 oligomerisation interface [polypeptide binding]; other site 320372008739 mobile loop; other site 320372008740 roof hairpin; other site 320372008741 Predicted transcriptional regulators [Transcription]; Region: COG1733 320372008742 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 320372008743 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 320372008744 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 320372008745 putative NAD(P) binding site [chemical binding]; other site 320372008746 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 320372008747 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 320372008748 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 320372008749 Predicted transcriptional regulators [Transcription]; Region: COG1733 320372008750 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 320372008751 dimerization interface [polypeptide binding]; other site 320372008752 putative DNA binding site [nucleotide binding]; other site 320372008753 putative Zn2+ binding site [ion binding]; other site 320372008754 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 320372008755 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 320372008756 Coenzyme A binding pocket [chemical binding]; other site 320372008757 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 320372008758 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 320372008759 non-specific DNA binding site [nucleotide binding]; other site 320372008760 salt bridge; other site 320372008761 sequence-specific DNA binding site [nucleotide binding]; other site 320372008762 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 320372008763 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 320372008764 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 320372008765 putative active site [active] 320372008766 catalytic site [active] 320372008767 putative metal binding site [ion binding]; other site 320372008768 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 320372008769 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372008770 putative substrate translocation pore; other site 320372008771 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 320372008772 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 320372008773 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 320372008774 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 320372008775 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 320372008776 BON domain; Region: BON; pfam04972 320372008777 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 320372008778 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 320372008779 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 320372008780 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 320372008781 putative catalytic residue [active] 320372008782 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372008783 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372008784 The 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 320372008785 dimerization interface [polypeptide binding]; other site 320372008786 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 320372008787 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 320372008788 ABC-ATPase subunit interface; other site 320372008789 dimer interface [polypeptide binding]; other site 320372008790 putative PBP binding regions; other site 320372008791 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 320372008792 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 320372008793 putative ligand binding residues [chemical binding]; other site 320372008794 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 320372008795 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 320372008796 N-terminal plug; other site 320372008797 ligand-binding site [chemical binding]; other site 320372008798 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 320372008799 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 320372008800 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 320372008801 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 320372008802 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 320372008803 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 320372008804 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 320372008805 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 320372008806 catalytic loop [active] 320372008807 iron binding site [ion binding]; other site 320372008808 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 320372008809 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 320372008810 major facilitator superfamily transporter; Provisional; Region: PRK05122 320372008811 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372008812 putative substrate translocation pore; other site 320372008813 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372008814 EamA-like transporter family; Region: EamA; pfam00892 320372008815 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 320372008816 EamA-like transporter family; Region: EamA; pfam00892 320372008817 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 320372008818 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372008819 catalytic residue [active] 320372008820 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372008821 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372008822 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 320372008823 putative effector binding pocket; other site 320372008824 dimerization interface [polypeptide binding]; other site 320372008825 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 320372008826 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 320372008827 putative ligand binding site [chemical binding]; other site 320372008828 putative NAD binding site [chemical binding]; other site 320372008829 catalytic site [active] 320372008830 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 320372008831 putative FMN binding site [chemical binding]; other site 320372008832 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 320372008833 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372008834 putative substrate translocation pore; other site 320372008835 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372008836 Major Facilitator Superfamily; Region: MFS_1; pfam07690 320372008837 putative substrate translocation pore; other site 320372008838 fumarylacetoacetase; Region: PLN02856 320372008839 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 320372008840 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 320372008841 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 320372008842 benzoate transport; Region: 2A0115; TIGR00895 320372008843 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372008844 putative substrate translocation pore; other site 320372008845 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372008846 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 320372008847 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 320372008848 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 320372008849 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 320372008850 EAL domain; Region: EAL; pfam00563 320372008851 Cornifin (SPRR) family; Region: Cornifin; pfam02389 320372008852 Uncharacterized conserved protein [Function unknown]; Region: COG3791 320372008853 Transcriptional regulator [Transcription]; Region: IclR; COG1414 320372008854 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 320372008855 Bacterial transcriptional regulator; Region: IclR; pfam01614 320372008856 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 320372008857 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 320372008858 FAD binding site [chemical binding]; other site 320372008859 substrate binding pocket [chemical binding]; other site 320372008860 catalytic base [active] 320372008861 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 320372008862 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 320372008863 dimer interface [polypeptide binding]; other site 320372008864 decamer (pentamer of dimers) interface [polypeptide binding]; other site 320372008865 catalytic triad [active] 320372008866 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 320372008867 Predicted membrane protein [Function unknown]; Region: COG5393 320372008868 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 320372008869 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 320372008870 Type II transport protein GspH; Region: GspH; pfam12019 320372008871 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 320372008872 ATP cone domain; Region: ATP-cone; pfam03477 320372008873 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 320372008874 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 320372008875 dimer interface [polypeptide binding]; other site 320372008876 active site 320372008877 glycine-pyridoxal phosphate binding site [chemical binding]; other site 320372008878 folate binding site [chemical binding]; other site 320372008879 malonic semialdehyde reductase; Provisional; Region: PRK10538 320372008880 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 320372008881 putative NAD(P) binding site [chemical binding]; other site 320372008882 homodimer interface [polypeptide binding]; other site 320372008883 homotetramer interface [polypeptide binding]; other site 320372008884 active site 320372008885 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 320372008886 active site 320372008887 TolQ protein; Region: tolQ; TIGR02796 320372008888 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 320372008889 TolR protein; Region: tolR; TIGR02801 320372008890 TolA protein; Region: tolA_full; TIGR02794 320372008891 TonB C terminal; Region: TonB_2; pfam13103 320372008892 translocation protein TolB; Provisional; Region: tolB; PRK02889 320372008893 TolB amino-terminal domain; Region: TolB_N; pfam04052 320372008894 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 320372008895 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 320372008896 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 320372008897 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 320372008898 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 320372008899 ligand binding site [chemical binding]; other site 320372008900 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 320372008901 Tetratricopeptide repeat; Region: TPR_6; pfam13174 320372008902 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 320372008903 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 320372008904 active site 320372008905 tetramer interface; other site 320372008906 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 320372008907 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 320372008908 putative active site [active] 320372008909 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 320372008910 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 320372008911 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 320372008912 active site 320372008913 motif I; other site 320372008914 motif II; other site 320372008915 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 320372008916 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 320372008917 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372008918 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 320372008919 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372008920 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 320372008921 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 320372008922 trimer interface [polypeptide binding]; other site 320372008923 active site 320372008924 substrate binding site [chemical binding]; other site 320372008925 CoA binding site [chemical binding]; other site 320372008926 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 320372008927 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 320372008928 tyrosine kinase; Provisional; Region: PRK11519 320372008929 Chain length determinant protein; Region: Wzz; pfam02706 320372008930 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 320372008931 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 320372008932 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 320372008933 Low molecular weight phosphatase family; Region: LMWPc; cd00115 320372008934 active site 320372008935 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 320372008936 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 320372008937 CoA-binding domain; Region: CoA_binding_3; pfam13727 320372008938 Bacterial sugar transferase; Region: Bac_transf; pfam02397 320372008939 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 320372008940 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 320372008941 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372008942 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372008943 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 320372008944 active site 320372008945 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 320372008946 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 320372008947 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 320372008948 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372008949 catalytic residue [active] 320372008950 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: PRK13187 320372008951 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 320372008952 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 320372008953 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 320372008954 active site 320372008955 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 320372008956 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 320372008957 Methyltransferase domain; Region: Methyltransf_23; pfam13489 320372008958 Methyltransferase domain; Region: Methyltransf_12; pfam08242 320372008959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372008960 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 320372008961 Enoylreductase; Region: PKS_ER; smart00829 320372008962 NAD(P) binding site [chemical binding]; other site 320372008963 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 320372008964 KR domain; Region: KR; pfam08659 320372008965 putative NADP binding site [chemical binding]; other site 320372008966 active site 320372008967 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 320372008968 Sulfatase; Region: Sulfatase; pfam00884 320372008969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372008970 NAD(P) binding site [chemical binding]; other site 320372008971 active site 320372008972 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 320372008973 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 320372008974 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 320372008975 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 320372008976 Substrate binding site; other site 320372008977 Mg++ binding site; other site 320372008978 metal-binding site 320372008979 Mg++ binding site; other site 320372008980 metal-binding site 320372008981 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 320372008982 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 320372008983 dimer interface [polypeptide binding]; other site 320372008984 active site 320372008985 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 320372008986 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 320372008987 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 320372008988 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 320372008989 NADP-binding site; other site 320372008990 homotetramer interface [polypeptide binding]; other site 320372008991 substrate binding site [chemical binding]; other site 320372008992 homodimer interface [polypeptide binding]; other site 320372008993 active site 320372008994 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 320372008995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372008996 NAD(P) binding site [chemical binding]; other site 320372008997 active site 320372008998 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372008999 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 320372009000 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 320372009001 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 320372009002 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 320372009003 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372009004 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 320372009005 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 320372009006 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 320372009007 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 320372009008 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 320372009009 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 320372009010 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372009011 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 320372009012 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 320372009013 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 320372009014 Substrate binding site; other site 320372009015 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 320372009016 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 320372009017 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 320372009018 putative active site [active] 320372009019 putative dimer interface [polypeptide binding]; other site 320372009020 mechanosensitive channel MscS; Provisional; Region: PRK10334 320372009021 Mechanosensitive ion channel; Region: MS_channel; pfam00924 320372009022 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 320372009023 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 320372009024 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 320372009025 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372009026 ATP binding site [chemical binding]; other site 320372009027 Mg2+ binding site [ion binding]; other site 320372009028 G-X-G motif; other site 320372009029 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 320372009030 ATP binding site [chemical binding]; other site 320372009031 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 320372009032 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 320372009033 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 320372009034 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 320372009035 SnoaL-like domain; Region: SnoaL_3; pfam13474 320372009036 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 320372009037 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 320372009038 dimerization interface [polypeptide binding]; other site 320372009039 putative ATP binding site [chemical binding]; other site 320372009040 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 320372009041 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 320372009042 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 320372009043 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 320372009044 poly(A) polymerase; Region: pcnB; TIGR01942 320372009045 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 320372009046 active site 320372009047 NTP binding site [chemical binding]; other site 320372009048 metal binding triad [ion binding]; metal-binding site 320372009049 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 320372009050 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 320372009051 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 320372009052 catalytic center binding site [active] 320372009053 ATP binding site [chemical binding]; other site 320372009054 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 320372009055 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 320372009056 Substrate-binding site [chemical binding]; other site 320372009057 Substrate specificity [chemical binding]; other site 320372009058 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 320372009059 oligomerization interface [polypeptide binding]; other site 320372009060 active site 320372009061 metal binding site [ion binding]; metal-binding site 320372009062 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 320372009063 chorismate binding enzyme; Region: Chorismate_bind; cl10555 320372009064 hypothetical protein; Provisional; Region: PRK07546 320372009065 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 320372009066 homodimer interface [polypeptide binding]; other site 320372009067 substrate-cofactor binding pocket; other site 320372009068 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372009069 catalytic residue [active] 320372009070 chaperone protein DnaJ; Provisional; Region: PRK10767 320372009071 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 320372009072 HSP70 interaction site [polypeptide binding]; other site 320372009073 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 320372009074 Zn binding sites [ion binding]; other site 320372009075 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 320372009076 dimer interface [polypeptide binding]; other site 320372009077 NAD-specific glutamate dehydrogenase; Region: NAD-GH; pfam10712 320372009078 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 320372009079 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 320372009080 nucleotide binding site [chemical binding]; other site 320372009081 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 320372009082 GrpE; Region: GrpE; pfam01025 320372009083 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 320372009084 dimer interface [polypeptide binding]; other site 320372009085 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 320372009086 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 320372009087 RNA binding surface [nucleotide binding]; other site 320372009088 ferrochelatase; Reviewed; Region: hemH; PRK00035 320372009089 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 320372009090 C-terminal domain interface [polypeptide binding]; other site 320372009091 active site 320372009092 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 320372009093 active site 320372009094 N-terminal domain interface [polypeptide binding]; other site 320372009095 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 320372009096 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 320372009097 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 320372009098 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 320372009099 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 320372009100 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 320372009101 Walker A/P-loop; other site 320372009102 ATP binding site [chemical binding]; other site 320372009103 Q-loop/lid; other site 320372009104 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 320372009105 ABC transporter signature motif; other site 320372009106 Walker B; other site 320372009107 D-loop; other site 320372009108 H-loop/switch region; other site 320372009109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 320372009110 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 320372009111 metal binding triad; other site 320372009112 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 320372009113 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 320372009114 metal binding triad; other site 320372009115 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 320372009116 TIGR02099 family protein; Region: TIGR02099 320372009117 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 320372009118 nitrilase; Region: PLN02798 320372009119 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 320372009120 putative active site [active] 320372009121 catalytic triad [active] 320372009122 dimer interface [polypeptide binding]; other site 320372009123 protease TldD; Provisional; Region: tldD; PRK10735 320372009124 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 320372009125 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 320372009126 Transposase domain (DUF772); Region: DUF772; pfam05598 320372009127 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 320372009128 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 320372009129 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 320372009130 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 320372009131 heme-binding site [chemical binding]; other site 320372009132 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 320372009133 FAD binding pocket [chemical binding]; other site 320372009134 FAD binding motif [chemical binding]; other site 320372009135 phosphate binding motif [ion binding]; other site 320372009136 beta-alpha-beta structure motif; other site 320372009137 NAD binding pocket [chemical binding]; other site 320372009138 Heme binding pocket [chemical binding]; other site 320372009139 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 320372009140 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 320372009141 FAD binding domain; Region: FAD_binding_4; pfam01565 320372009142 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 320372009143 FAD binding domain; Region: FAD_binding_4; pfam01565 320372009144 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 320372009145 FAD binding domain; Region: FAD_binding_4; pfam01565 320372009146 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 320372009147 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 320372009148 Cysteine-rich domain; Region: CCG; pfam02754 320372009149 Cysteine-rich domain; Region: CCG; pfam02754 320372009150 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 320372009151 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 320372009152 catalytic residue [active] 320372009153 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 320372009154 pyrroline-5-carboxylate reductase; Region: PLN02688 320372009155 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 320372009156 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372009157 dimer interface [polypeptide binding]; other site 320372009158 conserved gate region; other site 320372009159 ABC-ATPase subunit interface; other site 320372009160 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 320372009161 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 320372009162 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372009163 Walker A/P-loop; other site 320372009164 ATP binding site [chemical binding]; other site 320372009165 Q-loop/lid; other site 320372009166 ABC transporter signature motif; other site 320372009167 Walker B; other site 320372009168 D-loop; other site 320372009169 H-loop/switch region; other site 320372009170 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 320372009171 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 320372009172 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 320372009173 active site 320372009174 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 320372009175 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372009176 Walker A/P-loop; other site 320372009177 ATP binding site [chemical binding]; other site 320372009178 Q-loop/lid; other site 320372009179 ABC transporter signature motif; other site 320372009180 Walker B; other site 320372009181 D-loop; other site 320372009182 H-loop/switch region; other site 320372009183 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 320372009184 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 320372009185 Walker A/P-loop; other site 320372009186 ATP binding site [chemical binding]; other site 320372009187 Q-loop/lid; other site 320372009188 ABC transporter signature motif; other site 320372009189 Walker B; other site 320372009190 D-loop; other site 320372009191 H-loop/switch region; other site 320372009192 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 320372009193 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 320372009194 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 320372009195 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 320372009196 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 320372009197 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372009198 DNA-binding site [nucleotide binding]; DNA binding site 320372009199 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 320372009200 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 320372009201 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 320372009202 active site 320372009203 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 320372009204 UbiA prenyltransferase family; Region: UbiA; pfam01040 320372009205 Predicted transcriptional regulators [Transcription]; Region: COG1733 320372009206 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 320372009207 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 320372009208 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 320372009209 dimerization interface [polypeptide binding]; other site 320372009210 DPS ferroxidase diiron center [ion binding]; other site 320372009211 ion pore; other site 320372009212 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 320372009213 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 320372009214 dimer interface [polypeptide binding]; other site 320372009215 active site 320372009216 heme binding site [chemical binding]; other site 320372009217 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 320372009218 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372009219 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372009220 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 320372009221 dimerization interface [polypeptide binding]; other site 320372009222 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 320372009223 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 320372009224 generic binding surface II; other site 320372009225 ssDNA binding site; other site 320372009226 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 320372009227 ATP binding site [chemical binding]; other site 320372009228 putative Mg++ binding site [ion binding]; other site 320372009229 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 320372009230 nucleotide binding region [chemical binding]; other site 320372009231 ATP-binding site [chemical binding]; other site 320372009232 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 320372009233 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 320372009234 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 320372009235 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 320372009236 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 320372009237 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 320372009238 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 320372009239 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 320372009240 Protein export membrane protein; Region: SecD_SecF; cl14618 320372009241 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 320372009242 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 320372009243 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 320372009244 Protein export membrane protein; Region: SecD_SecF; pfam02355 320372009245 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372009246 metabolite-proton symporter; Region: 2A0106; TIGR00883 320372009247 putative substrate translocation pore; other site 320372009248 Uncharacterized conserved protein [Function unknown]; Region: COG2353 320372009249 YceI-like domain; Region: YceI; smart00867 320372009250 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 320372009251 Paraquat-inducible protein A; Region: PqiA; pfam04403 320372009252 Paraquat-inducible protein A; Region: PqiA; pfam04403 320372009253 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 320372009254 mce related protein; Region: MCE; pfam02470 320372009255 mce related protein; Region: MCE; pfam02470 320372009256 Protein of unknown function (DUF330); Region: DUF330; pfam03886 320372009257 Site-specific recombinase; Region: SpecificRecomb; pfam10136 320372009258 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 320372009259 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 320372009260 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 320372009261 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 320372009262 Predicted transcriptional regulator [Transcription]; Region: COG2378 320372009263 HTH domain; Region: HTH_11; pfam08279 320372009264 WYL domain; Region: WYL; pfam13280 320372009265 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 320372009266 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 320372009267 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 320372009268 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 320372009269 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 320372009270 ligand binding site [chemical binding]; other site 320372009271 homodimer interface [polypeptide binding]; other site 320372009272 NAD(P) binding site [chemical binding]; other site 320372009273 trimer interface B [polypeptide binding]; other site 320372009274 trimer interface A [polypeptide binding]; other site 320372009275 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 320372009276 nudix motif; other site 320372009277 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 320372009278 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 320372009279 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 320372009280 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 320372009281 active site 320372009282 FMN binding site [chemical binding]; other site 320372009283 substrate binding site [chemical binding]; other site 320372009284 3Fe-4S cluster binding site [ion binding]; other site 320372009285 putative glutathione S-transferase; Provisional; Region: PRK10357 320372009286 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 320372009287 putative C-terminal domain interface [polypeptide binding]; other site 320372009288 putative GSH binding site (G-site) [chemical binding]; other site 320372009289 putative dimer interface [polypeptide binding]; other site 320372009290 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 320372009291 dimer interface [polypeptide binding]; other site 320372009292 N-terminal domain interface [polypeptide binding]; other site 320372009293 putative substrate binding pocket (H-site) [chemical binding]; other site 320372009294 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 320372009295 proline aminopeptidase P II; Provisional; Region: PRK10879 320372009296 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 320372009297 active site 320372009298 hypothetical protein; Provisional; Region: PRK06996 320372009299 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 320372009300 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 320372009301 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 320372009302 FMN binding site [chemical binding]; other site 320372009303 active site 320372009304 catalytic residues [active] 320372009305 substrate binding site [chemical binding]; other site 320372009306 DNA-binding protein Fis; Provisional; Region: PRK01905 320372009307 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 320372009308 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 320372009309 purine monophosphate binding site [chemical binding]; other site 320372009310 dimer interface [polypeptide binding]; other site 320372009311 putative catalytic residues [active] 320372009312 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 320372009313 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 320372009314 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 320372009315 active site 320372009316 putative DNA-binding cleft [nucleotide binding]; other site 320372009317 dimer interface [polypeptide binding]; other site 320372009318 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 320372009319 RuvA N terminal domain; Region: RuvA_N; pfam01330 320372009320 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 320372009321 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 320372009322 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 320372009323 Walker A motif; other site 320372009324 ATP binding site [chemical binding]; other site 320372009325 Walker B motif; other site 320372009326 arginine finger; other site 320372009327 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 320372009328 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 320372009329 Putative ParB-like nuclease; Region: ParBc_2; cl17538 320372009330 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 320372009331 catalytic core [active] 320372009332 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 320372009333 putative active site [active] 320372009334 dimerization interface [polypeptide binding]; other site 320372009335 putative tRNAtyr binding site [nucleotide binding]; other site 320372009336 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 320372009337 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 320372009338 active site 320372009339 HIGH motif; other site 320372009340 dimer interface [polypeptide binding]; other site 320372009341 KMSKS motif; other site 320372009342 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 320372009343 RNA binding surface [nucleotide binding]; other site 320372009344 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 320372009345 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 320372009346 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 320372009347 C-terminal domain interface [polypeptide binding]; other site 320372009348 GSH binding site (G-site) [chemical binding]; other site 320372009349 dimer interface [polypeptide binding]; other site 320372009350 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 320372009351 N-terminal domain interface [polypeptide binding]; other site 320372009352 putative dimer interface [polypeptide binding]; other site 320372009353 active site 320372009354 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 320372009355 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 320372009356 C-terminal domain interface [polypeptide binding]; other site 320372009357 GSH binding site (G-site) [chemical binding]; other site 320372009358 dimer interface [polypeptide binding]; other site 320372009359 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 320372009360 N-terminal domain interface [polypeptide binding]; other site 320372009361 dimer interface [polypeptide binding]; other site 320372009362 substrate binding pocket (H-site) [chemical binding]; other site 320372009363 Cupin; Region: Cupin_6; pfam12852 320372009364 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372009365 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372009366 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 320372009367 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 320372009368 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 320372009369 23S rRNA interface [nucleotide binding]; other site 320372009370 L3 interface [polypeptide binding]; other site 320372009371 OsmC-like protein; Region: OsmC; cl00767 320372009372 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 320372009373 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 320372009374 active site 320372009375 substrate binding pocket [chemical binding]; other site 320372009376 dimer interface [polypeptide binding]; other site 320372009377 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 320372009378 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 320372009379 putative active site [active] 320372009380 putative dimer interface [polypeptide binding]; other site 320372009381 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 320372009382 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 320372009383 putative dimer interface [polypeptide binding]; other site 320372009384 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 320372009385 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 320372009386 putative dimer interface [polypeptide binding]; other site 320372009387 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 320372009388 oligomerisation interface [polypeptide binding]; other site 320372009389 mobile loop; other site 320372009390 roof hairpin; other site 320372009391 Protein of unknown function (DUF1602); Region: DUF1602; pfam07673 320372009392 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 320372009393 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372009394 dimer interface [polypeptide binding]; other site 320372009395 conserved gate region; other site 320372009396 putative PBP binding loops; other site 320372009397 ABC-ATPase subunit interface; other site 320372009398 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 320372009399 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372009400 dimer interface [polypeptide binding]; other site 320372009401 conserved gate region; other site 320372009402 putative PBP binding loops; other site 320372009403 ABC-ATPase subunit interface; other site 320372009404 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 320372009405 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 320372009406 substrate binding pocket [chemical binding]; other site 320372009407 membrane-bound complex binding site; other site 320372009408 hinge residues; other site 320372009409 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 320372009410 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 320372009411 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 320372009412 NAD(P) binding site [chemical binding]; other site 320372009413 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 320372009414 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372009415 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372009416 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372009417 The 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 320372009418 dimerization interface [polypeptide binding]; other site 320372009419 adenylosuccinate lyase; Provisional; Region: PRK09285 320372009420 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 320372009421 tetramer interface [polypeptide binding]; other site 320372009422 active site 320372009423 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 320372009424 ATP-binding site [chemical binding]; other site 320372009425 Gluconate-6-phosphate binding site [chemical binding]; other site 320372009426 Shikimate kinase; Region: SKI; pfam01202 320372009427 GntP family permease; Region: GntP_permease; pfam02447 320372009428 fructuronate transporter; Provisional; Region: PRK10034; cl15264 320372009429 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 320372009430 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 320372009431 active site 320372009432 intersubunit interface [polypeptide binding]; other site 320372009433 catalytic residue [active] 320372009434 phosphogluconate dehydratase; Validated; Region: PRK09054 320372009435 6-phosphogluconate dehydratase; Region: edd; TIGR01196 320372009436 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 320372009437 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 320372009438 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 320372009439 putative active site [active] 320372009440 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 320372009441 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 320372009442 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 320372009443 putative catalytic cysteine [active] 320372009444 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 320372009445 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 320372009446 Lipopolysaccharide-assembly; Region: LptE; cl01125 320372009447 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 320372009448 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 320372009449 HIGH motif; other site 320372009450 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 320372009451 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 320372009452 active site 320372009453 KMSKS motif; other site 320372009454 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 320372009455 tRNA binding surface [nucleotide binding]; other site 320372009456 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 320372009457 TolR protein; Region: tolR; TIGR02801 320372009458 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 320372009459 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 320372009460 dihydrodipicolinate reductase; Provisional; Region: PRK00048 320372009461 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 320372009462 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 320372009463 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 320372009464 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 320372009465 ferric uptake regulator; Provisional; Region: fur; PRK09462 320372009466 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 320372009467 metal binding site 2 [ion binding]; metal-binding site 320372009468 putative DNA binding helix; other site 320372009469 metal binding site 1 [ion binding]; metal-binding site 320372009470 dimer interface [polypeptide binding]; other site 320372009471 structural Zn2+ binding site [ion binding]; other site 320372009472 ureidoglycolate hydrolase; Provisional; Region: PRK13395 320372009473 allantoicase; Provisional; Region: PRK13257 320372009474 Allantoicase repeat; Region: Allantoicase; pfam03561 320372009475 Allantoicase repeat; Region: Allantoicase; pfam03561 320372009476 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 320372009477 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 320372009478 Transcriptional regulators [Transcription]; Region: FadR; COG2186 320372009479 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372009480 DNA-binding site [nucleotide binding]; DNA binding site 320372009481 FCD domain; Region: FCD; pfam07729 320372009482 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 320372009483 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372009484 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 320372009485 dimerization interface [polypeptide binding]; other site 320372009486 cyanate hydratase; Validated; Region: PRK02866 320372009487 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 320372009488 oligomer interface [polypeptide binding]; other site 320372009489 active site 320372009490 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 320372009491 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372009492 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 320372009493 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 320372009494 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 320372009495 transketolase; Reviewed; Region: PRK12753 320372009496 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 320372009497 TPP-binding site [chemical binding]; other site 320372009498 dimer interface [polypeptide binding]; other site 320372009499 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 320372009500 PYR/PP interface [polypeptide binding]; other site 320372009501 dimer interface [polypeptide binding]; other site 320372009502 TPP binding site [chemical binding]; other site 320372009503 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 320372009504 spermidine synthase; Provisional; Region: PRK00811 320372009505 Spermidine synthase [Amino acid transport and metabolism]; Region: SpeE; COG0421 320372009506 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 320372009507 putative dimer interface [polypeptide binding]; other site 320372009508 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 320372009509 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 320372009510 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 320372009511 putative RNAase interaction site [polypeptide binding]; other site 320372009512 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 320372009513 active site 320372009514 barstar interaction site; other site 320372009515 malic enzyme; Reviewed; Region: PRK12862 320372009516 Malic enzyme, N-terminal domain; Region: malic; pfam00390 320372009517 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 320372009518 putative NAD(P) binding site [chemical binding]; other site 320372009519 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 320372009520 thiamine monophosphate kinase; Provisional; Region: PRK05731 320372009521 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 320372009522 ATP binding site [chemical binding]; other site 320372009523 dimerization interface [polypeptide binding]; other site 320372009524 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 320372009525 tetramer interfaces [polypeptide binding]; other site 320372009526 binuclear metal-binding site [ion binding]; other site 320372009527 Competence-damaged protein; Region: CinA; pfam02464 320372009528 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 320372009529 active site 320372009530 dimer interface [polypeptide binding]; other site 320372009531 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 320372009532 active site 320372009533 catalytic residues [active] 320372009534 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 320372009535 classical (c) SDRs; Region: SDR_c; cd05233 320372009536 NAD(P) binding site [chemical binding]; other site 320372009537 active site 320372009538 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 320372009539 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 320372009540 TM-ABC transporter signature motif; other site 320372009541 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 320372009542 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 320372009543 Walker A/P-loop; other site 320372009544 ATP binding site [chemical binding]; other site 320372009545 Q-loop/lid; other site 320372009546 ABC transporter signature motif; other site 320372009547 Walker B; other site 320372009548 D-loop; other site 320372009549 H-loop/switch region; other site 320372009550 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 320372009551 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 320372009552 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 320372009553 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 320372009554 ligand binding site [chemical binding]; other site 320372009555 short chain dehydrogenase; Provisional; Region: PRK07063 320372009556 classical (c) SDRs; Region: SDR_c; cd05233 320372009557 NAD(P) binding site [chemical binding]; other site 320372009558 active site 320372009559 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 320372009560 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 320372009561 active site 320372009562 intersubunit interface [polypeptide binding]; other site 320372009563 catalytic residue [active] 320372009564 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 320372009565 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 320372009566 Transcriptional regulator [Transcription]; Region: IclR; COG1414 320372009567 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 320372009568 Bacterial transcriptional regulator; Region: IclR; pfam01614 320372009569 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 320372009570 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 320372009571 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 320372009572 Transglycosylase; Region: Transgly; cl17702 320372009573 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 320372009574 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 320372009575 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 320372009576 shikimate binding site; other site 320372009577 NAD(P) binding site [chemical binding]; other site 320372009578 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 320372009579 RNB domain; Region: RNB; pfam00773 320372009580 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 320372009581 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 320372009582 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 320372009583 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 320372009584 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 320372009585 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 320372009586 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 320372009587 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 320372009588 catalytic residues [active] 320372009589 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 320372009590 Dehydroquinase class II; Region: DHquinase_II; pfam01220 320372009591 active site 320372009592 trimer interface [polypeptide binding]; other site 320372009593 dimer interface [polypeptide binding]; other site 320372009594 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 320372009595 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 320372009596 carboxyltransferase (CT) interaction site; other site 320372009597 biotinylation site [posttranslational modification]; other site 320372009598 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 320372009599 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 320372009600 ATP-grasp domain; Region: ATP-grasp_4; cl17255 320372009601 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 320372009602 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 320372009603 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 320372009604 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 320372009605 S-adenosylmethionine binding site [chemical binding]; other site 320372009606 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 320372009607 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 320372009608 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 320372009609 dimer interface [polypeptide binding]; other site 320372009610 catalytic triad [active] 320372009611 peroxidatic and resolving cysteines [active] 320372009612 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 320372009613 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 320372009614 substrate binding site [chemical binding]; other site 320372009615 ATP binding site [chemical binding]; other site 320372009616 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 320372009617 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 320372009618 dimer interface [polypeptide binding]; other site 320372009619 putative radical transfer pathway; other site 320372009620 diiron center [ion binding]; other site 320372009621 tyrosyl radical; other site 320372009622 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 320372009623 ATP cone domain; Region: ATP-cone; pfam03477 320372009624 Class I ribonucleotide reductase; Region: RNR_I; cd01679 320372009625 active site 320372009626 dimer interface [polypeptide binding]; other site 320372009627 catalytic residues [active] 320372009628 effector binding site; other site 320372009629 R2 peptide binding site; other site 320372009630 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 320372009631 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 320372009632 amidase catalytic site [active] 320372009633 Zn binding residues [ion binding]; other site 320372009634 substrate binding site [chemical binding]; other site 320372009635 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 320372009636 signal recognition particle protein; Provisional; Region: PRK10867 320372009637 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 320372009638 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 320372009639 P loop; other site 320372009640 GTP binding site [chemical binding]; other site 320372009641 Signal peptide binding domain; Region: SRP_SPB; pfam02978 320372009642 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 320372009643 active site 320372009644 MarC family integral membrane protein; Region: MarC; cl00919 320372009645 prolyl-tRNA synthetase; Provisional; Region: PRK09194 320372009646 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 320372009647 dimer interface [polypeptide binding]; other site 320372009648 motif 1; other site 320372009649 active site 320372009650 motif 2; other site 320372009651 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 320372009652 putative deacylase active site [active] 320372009653 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 320372009654 active site 320372009655 motif 3; other site 320372009656 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 320372009657 anticodon binding site; other site 320372009658 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 320372009659 putative active site [active] 320372009660 Ap4A binding site [chemical binding]; other site 320372009661 nudix motif; other site 320372009662 putative metal binding site [ion binding]; other site 320372009663 CNP1-like family; Region: CNP1; pfam08750 320372009664 gamma-glutamyl kinase; Provisional; Region: PRK05429 320372009665 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 320372009666 nucleotide binding site [chemical binding]; other site 320372009667 homotetrameric interface [polypeptide binding]; other site 320372009668 putative phosphate binding site [ion binding]; other site 320372009669 putative allosteric binding site; other site 320372009670 PUA domain; Region: PUA; pfam01472 320372009671 GTPase CgtA; Reviewed; Region: obgE; PRK12298 320372009672 GTP1/OBG; Region: GTP1_OBG; pfam01018 320372009673 Obg GTPase; Region: Obg; cd01898 320372009674 G1 box; other site 320372009675 GTP/Mg2+ binding site [chemical binding]; other site 320372009676 Switch I region; other site 320372009677 G2 box; other site 320372009678 G3 box; other site 320372009679 Switch II region; other site 320372009680 G4 box; other site 320372009681 G5 box; other site 320372009682 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 320372009683 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 320372009684 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 320372009685 substrate binding pocket [chemical binding]; other site 320372009686 chain length determination region; other site 320372009687 substrate-Mg2+ binding site; other site 320372009688 catalytic residues [active] 320372009689 aspartate-rich region 1; other site 320372009690 active site lid residues [active] 320372009691 aspartate-rich region 2; other site 320372009692 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 320372009693 Domain of unknown function DUF21; Region: DUF21; pfam01595 320372009694 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 320372009695 Transporter associated domain; Region: CorC_HlyC; smart01091 320372009696 Type II/IV secretion system protein; Region: T2SE; pfam00437 320372009697 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 320372009698 Walker A motif; other site 320372009699 ATP binding site [chemical binding]; other site 320372009700 Walker B motif; other site 320372009701 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 320372009702 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 320372009703 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 320372009704 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 320372009705 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 320372009706 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 320372009707 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 320372009708 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 320372009709 CoA-binding site [chemical binding]; other site 320372009710 ATP-binding [chemical binding]; other site 320372009711 hypothetical protein; Provisional; Region: PRK05287 320372009712 Domain of unknown function (DUF329); Region: DUF329; pfam03884 320372009713 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 320372009714 active site 320372009715 8-oxo-dGMP binding site [chemical binding]; other site 320372009716 nudix motif; other site 320372009717 metal binding site [ion binding]; metal-binding site 320372009718 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 320372009719 heterotetramer interface [polypeptide binding]; other site 320372009720 active site pocket [active] 320372009721 cleavage site 320372009722 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 320372009723 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 320372009724 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 320372009725 SEC-C motif; Region: SEC-C; pfam02810 320372009726 Protein of unknown function (DUF721); Region: DUF721; pfam05258 320372009727 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 320372009728 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 320372009729 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 320372009730 catalytic triad [active] 320372009731 dimer interface [polypeptide binding]; other site 320372009732 cell division protein FtsZ; Validated; Region: PRK09330 320372009733 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 320372009734 nucleotide binding site [chemical binding]; other site 320372009735 SulA interaction site; other site 320372009736 cell division protein FtsA; Region: ftsA; TIGR01174 320372009737 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 320372009738 nucleotide binding site [chemical binding]; other site 320372009739 Cell division protein FtsA; Region: FtsA; pfam14450 320372009740 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 320372009741 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 320372009742 Cell division protein FtsQ; Region: FtsQ; pfam03799 320372009743 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 320372009744 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 320372009745 ATP-grasp domain; Region: ATP-grasp_4; cl17255 320372009746 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 320372009747 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 320372009748 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 320372009749 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 320372009750 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 320372009751 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 320372009752 active site 320372009753 homodimer interface [polypeptide binding]; other site 320372009754 cell division protein FtsW; Region: ftsW; TIGR02614 320372009755 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 320372009756 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 320372009757 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 320372009758 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 320372009759 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 320372009760 Mg++ binding site [ion binding]; other site 320372009761 putative catalytic motif [active] 320372009762 putative substrate binding site [chemical binding]; other site 320372009763 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 320372009764 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 320372009765 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 320372009766 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 320372009767 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 320372009768 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 320372009769 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 320372009770 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 320372009771 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 320372009772 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 320372009773 Cell division protein FtsL; Region: FtsL; pfam04999 320372009774 MraW methylase family; Region: Methyltransf_5; cl17771 320372009775 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 320372009776 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 320372009777 diiron binding motif [ion binding]; other site 320372009778 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372009779 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 320372009780 trimer interface [polypeptide binding]; other site 320372009781 eyelet of channel; other site 320372009782 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 320372009783 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 320372009784 acyl-activating enzyme (AAE) consensus motif; other site 320372009785 putative AMP binding site [chemical binding]; other site 320372009786 putative active site [active] 320372009787 putative CoA binding site [chemical binding]; other site 320372009788 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 320372009789 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 320372009790 putative [4Fe-4S] binding site [ion binding]; other site 320372009791 putative molybdopterin cofactor binding site [chemical binding]; other site 320372009792 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 320372009793 putative molybdopterin cofactor binding site; other site 320372009794 enoyl-CoA hydratase; Provisional; Region: PRK05862 320372009795 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 320372009796 substrate binding site [chemical binding]; other site 320372009797 oxyanion hole (OAH) forming residues; other site 320372009798 trimer interface [polypeptide binding]; other site 320372009799 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 320372009800 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 320372009801 NAD(P) binding site [chemical binding]; other site 320372009802 catalytic residues [active] 320372009803 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 320372009804 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 320372009805 dimer interface [polypeptide binding]; other site 320372009806 active site 320372009807 enoyl-CoA hydratase; Provisional; Region: PRK08140 320372009808 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 320372009809 substrate binding site [chemical binding]; other site 320372009810 oxyanion hole (OAH) forming residues; other site 320372009811 trimer interface [polypeptide binding]; other site 320372009812 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 320372009813 CoenzymeA binding site [chemical binding]; other site 320372009814 subunit interaction site [polypeptide binding]; other site 320372009815 PHB binding site; other site 320372009816 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 320372009817 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 320372009818 active site 320372009819 AMP binding site [chemical binding]; other site 320372009820 homodimer interface [polypeptide binding]; other site 320372009821 acyl-activating enzyme (AAE) consensus motif; other site 320372009822 CoA binding site [chemical binding]; other site 320372009823 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 320372009824 MltA specific insert domain; Region: MltA; smart00925 320372009825 3D domain; Region: 3D; pfam06725 320372009826 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 320372009827 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 320372009828 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 320372009829 substrate binding site [chemical binding]; other site 320372009830 hexamer interface [polypeptide binding]; other site 320372009831 metal binding site [ion binding]; metal-binding site 320372009832 phosphoglycolate phosphatase; Provisional; Region: PRK13222 320372009833 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 320372009834 motif II; other site 320372009835 anthranilate synthase component I; Provisional; Region: PRK13565 320372009836 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 320372009837 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 320372009838 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 320372009839 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 320372009840 glutamine binding [chemical binding]; other site 320372009841 catalytic triad [active] 320372009842 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 320372009843 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 320372009844 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 320372009845 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 320372009846 active site 320372009847 ribulose/triose binding site [chemical binding]; other site 320372009848 phosphate binding site [ion binding]; other site 320372009849 substrate (anthranilate) binding pocket [chemical binding]; other site 320372009850 product (indole) binding pocket [chemical binding]; other site 320372009851 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 320372009852 putative active site [active] 320372009853 putative metal binding residues [ion binding]; other site 320372009854 signature motif; other site 320372009855 putative triphosphate binding site [ion binding]; other site 320372009856 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 320372009857 ligand binding site [chemical binding]; other site 320372009858 active site 320372009859 UGI interface [polypeptide binding]; other site 320372009860 catalytic site [active] 320372009861 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 320372009862 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 320372009863 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 320372009864 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 320372009865 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 320372009866 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 320372009867 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 320372009868 dimerization domain [polypeptide binding]; other site 320372009869 dimer interface [polypeptide binding]; other site 320372009870 catalytic residues [active] 320372009871 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 320372009872 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 320372009873 GTP-binding protein YchF; Reviewed; Region: PRK09601 320372009874 YchF GTPase; Region: YchF; cd01900 320372009875 G1 box; other site 320372009876 GTP/Mg2+ binding site [chemical binding]; other site 320372009877 Switch I region; other site 320372009878 G2 box; other site 320372009879 Switch II region; other site 320372009880 G3 box; other site 320372009881 G4 box; other site 320372009882 G5 box; other site 320372009883 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 320372009884 NADH dehydrogenase subunit B; Validated; Region: PRK06411 320372009885 Helix-turn-helix domain; Region: HTH_18; pfam12833 320372009886 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 320372009887 Spore germination protein; Region: Spore_permease; cl17796 320372009888 Protein of unknown function (DUF419); Region: DUF419; cl15265 320372009889 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 320372009890 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 320372009891 putative active site [active] 320372009892 catalytic site [active] 320372009893 putative metal binding site [ion binding]; other site 320372009894 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 320372009895 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 320372009896 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372009897 Walker A/P-loop; other site 320372009898 ATP binding site [chemical binding]; other site 320372009899 Q-loop/lid; other site 320372009900 ABC transporter signature motif; other site 320372009901 Walker B; other site 320372009902 D-loop; other site 320372009903 H-loop/switch region; other site 320372009904 ABC transporter; Region: ABC_tran_2; pfam12848 320372009905 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 320372009906 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 320372009907 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 320372009908 Isochorismatase family; Region: Isochorismatase; pfam00857 320372009909 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 320372009910 catalytic triad [active] 320372009911 conserved cis-peptide bond; other site 320372009912 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 320372009913 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 320372009914 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 320372009915 active site 320372009916 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 320372009917 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 320372009918 tRNA; other site 320372009919 putative tRNA binding site [nucleotide binding]; other site 320372009920 putative NADP binding site [chemical binding]; other site 320372009921 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 320372009922 peptide chain release factor 1; Validated; Region: prfA; PRK00591 320372009923 This domain is found in peptide chain release factors; Region: PCRF; smart00937 320372009924 RF-1 domain; Region: RF-1; pfam00472 320372009925 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 320372009926 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 320372009927 S-adenosylmethionine binding site [chemical binding]; other site 320372009928 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 320372009929 putative GSH binding site [chemical binding]; other site 320372009930 catalytic residues [active] 320372009931 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 320372009932 Flavoprotein; Region: Flavoprotein; pfam02441 320372009933 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 320372009934 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 320372009935 putative active site [active] 320372009936 metal binding site [ion binding]; metal-binding site 320372009937 amino acid transporter; Region: 2A0306; TIGR00909 320372009938 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 320372009939 DNA-binding site [nucleotide binding]; DNA binding site 320372009940 RNA-binding motif; other site 320372009941 putative chaperone; Provisional; Region: PRK11678 320372009942 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 320372009943 nucleotide binding site [chemical binding]; other site 320372009944 putative NEF/HSP70 interaction site [polypeptide binding]; other site 320372009945 SBD interface [polypeptide binding]; other site 320372009946 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 320372009947 putative FMN binding site [chemical binding]; other site 320372009948 D-galactonate transporter; Region: 2A0114; TIGR00893 320372009949 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372009950 putative substrate translocation pore; other site 320372009951 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372009952 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372009953 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 320372009954 Methyltransferase domain; Region: Methyltransf_32; pfam13679 320372009955 Methyltransferase domain; Region: Methyltransf_31; pfam13847 320372009956 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 320372009957 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 320372009958 S-adenosylmethionine binding site [chemical binding]; other site 320372009959 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 320372009960 Water Stress and Hypersensitive response; Region: WHy; smart00769 320372009961 Peptidase family M1; Region: Peptidase_M1; pfam01433 320372009962 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 320372009963 Zn binding site [ion binding]; other site 320372009964 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 320372009965 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372009966 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372009967 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 320372009968 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 320372009969 putative active site [active] 320372009970 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 320372009971 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 320372009972 Walker A/P-loop; other site 320372009973 ATP binding site [chemical binding]; other site 320372009974 Q-loop/lid; other site 320372009975 ABC transporter signature motif; other site 320372009976 Walker B; other site 320372009977 D-loop; other site 320372009978 H-loop/switch region; other site 320372009979 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 320372009980 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 320372009981 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 320372009982 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 320372009983 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 320372009984 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 320372009985 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 320372009986 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 320372009987 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 320372009988 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 320372009989 ligand binding site [chemical binding]; other site 320372009990 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 320372009991 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 320372009992 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 320372009993 Clp amino terminal domain; Region: Clp_N; pfam02861 320372009994 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 320372009995 Walker A motif; other site 320372009996 ATP binding site [chemical binding]; other site 320372009997 Walker B motif; other site 320372009998 arginine finger; other site 320372009999 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 320372010000 Walker A motif; other site 320372010001 ATP binding site [chemical binding]; other site 320372010002 Walker B motif; other site 320372010003 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 320372010004 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 320372010005 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 320372010006 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 320372010007 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 320372010008 Protein of unknown function (DUF796); Region: DUF796; pfam05638 320372010009 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 320372010010 Protein of unknown function (DUF877); Region: DUF877; pfam05943 320372010011 Protein of unknown function (DUF770); Region: DUF770; pfam05591 320372010012 TPR repeat; Region: TPR_11; pfam13414 320372010013 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 320372010014 TPR motif; other site 320372010015 binding surface 320372010016 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 320372010017 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 320372010018 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 320372010019 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 320372010020 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 320372010021 DNA methylase; Region: N6_N4_Mtase; pfam01555 320372010022 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 320372010023 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 320372010024 Baseplate J-like protein; Region: Baseplate_J; cl01294 320372010025 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 320372010026 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 320372010027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 320372010028 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 320372010029 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 320372010030 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 320372010031 DNA methylase; Region: N6_N4_Mtase; pfam01555 320372010032 DNA methylase; Region: N6_N4_Mtase; pfam01555 320372010033 AIPR protein; Region: AIPR; pfam10592 320372010034 DEAD-like helicases superfamily; Region: DEXDc; smart00487 320372010035 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 320372010036 ATP binding site [chemical binding]; other site 320372010037 putative Mg++ binding site [ion binding]; other site 320372010038 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 320372010039 nucleotide binding region [chemical binding]; other site 320372010040 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 320372010041 ATP-binding site [chemical binding]; other site 320372010042 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 320372010043 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 320372010044 Methyltransferase domain; Region: Methyltransf_27; pfam13708 320372010045 septation ring formation regulator EzrA; Provisional; Region: PRK04778 320372010046 Uncharacterized conserved protein [Function unknown]; Region: COG1479 320372010047 Protein of unknown function DUF262; Region: DUF262; pfam03235 320372010048 Protein of unknown function DUF262; Region: DUF262; pfam03235 320372010049 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 320372010050 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 320372010051 AAA domain; Region: AAA_25; pfam13481 320372010052 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 320372010053 Walker A motif; other site 320372010054 ATP binding site [chemical binding]; other site 320372010055 Walker B motif; other site 320372010056 integrase; Provisional; Region: PRK09692 320372010057 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 320372010058 active site 320372010059 Int/Topo IB signature motif; other site 320372010060 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 320372010061 stringent starvation protein A; Provisional; Region: sspA; PRK09481 320372010062 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 320372010063 C-terminal domain interface [polypeptide binding]; other site 320372010064 putative GSH binding site (G-site) [chemical binding]; other site 320372010065 dimer interface [polypeptide binding]; other site 320372010066 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 320372010067 dimer interface [polypeptide binding]; other site 320372010068 N-terminal domain interface [polypeptide binding]; other site 320372010069 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 320372010070 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 320372010071 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 320372010072 Qi binding site; other site 320372010073 intrachain domain interface; other site 320372010074 interchain domain interface [polypeptide binding]; other site 320372010075 heme bH binding site [chemical binding]; other site 320372010076 heme bL binding site [chemical binding]; other site 320372010077 Qo binding site; other site 320372010078 interchain domain interface [polypeptide binding]; other site 320372010079 intrachain domain interface; other site 320372010080 Qi binding site; other site 320372010081 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 320372010082 Qo binding site; other site 320372010083 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 320372010084 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 320372010085 [2Fe-2S] cluster binding site [ion binding]; other site 320372010086 Uncharacterized conserved protein [Function unknown]; Region: COG0327 320372010087 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 320372010088 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 320372010089 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 320372010090 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 320372010091 protein binding site [polypeptide binding]; other site 320372010092 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 320372010093 sec-independent translocase; Provisional; Region: tatB; PRK01919 320372010094 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 320372010095 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 320372010096 nucleotide binding site/active site [active] 320372010097 HIT family signature motif; other site 320372010098 catalytic residue [active] 320372010099 Predicted membrane protein [Function unknown]; Region: COG3671 320372010100 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 320372010101 metal binding site [ion binding]; metal-binding site 320372010102 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 320372010103 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 320372010104 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 320372010105 substrate binding site [chemical binding]; other site 320372010106 glutamase interaction surface [polypeptide binding]; other site 320372010107 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 320372010108 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 320372010109 catalytic residues [active] 320372010110 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 320372010111 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 320372010112 putative active site [active] 320372010113 oxyanion strand; other site 320372010114 catalytic triad [active] 320372010115 MarC family integral membrane protein; Region: MarC; cl00919 320372010116 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 320372010117 putative active site pocket [active] 320372010118 4-fold oligomerization interface [polypeptide binding]; other site 320372010119 metal binding residues [ion binding]; metal-binding site 320372010120 3-fold/trimer interface [polypeptide binding]; other site 320372010121 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 320372010122 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 320372010123 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372010124 homodimer interface [polypeptide binding]; other site 320372010125 catalytic residue [active] 320372010126 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 320372010127 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 320372010128 NAD binding site [chemical binding]; other site 320372010129 dimerization interface [polypeptide binding]; other site 320372010130 product binding site; other site 320372010131 substrate binding site [chemical binding]; other site 320372010132 zinc binding site [ion binding]; other site 320372010133 catalytic residues [active] 320372010134 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 320372010135 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 320372010136 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 320372010137 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 320372010138 hinge; other site 320372010139 active site 320372010140 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 320372010141 ABC-2 type transporter; Region: ABC2_membrane; cl17235 320372010142 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 320372010143 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 320372010144 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 320372010145 Walker A/P-loop; other site 320372010146 ATP binding site [chemical binding]; other site 320372010147 Q-loop/lid; other site 320372010148 ABC transporter signature motif; other site 320372010149 Walker B; other site 320372010150 D-loop; other site 320372010151 H-loop/switch region; other site 320372010152 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 320372010153 anti sigma factor interaction site; other site 320372010154 regulatory phosphorylation site [posttranslational modification]; other site 320372010155 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 320372010156 VacJ like lipoprotein; Region: VacJ; cl01073 320372010157 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 320372010158 mce related protein; Region: MCE; pfam02470 320372010159 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 320372010160 Permease; Region: Permease; pfam02405 320372010161 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 320372010162 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 320372010163 Walker A/P-loop; other site 320372010164 ATP binding site [chemical binding]; other site 320372010165 Q-loop/lid; other site 320372010166 ABC transporter signature motif; other site 320372010167 Walker B; other site 320372010168 D-loop; other site 320372010169 H-loop/switch region; other site 320372010170 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 320372010171 thiamine phosphate binding site [chemical binding]; other site 320372010172 active site 320372010173 pyrophosphate binding site [ion binding]; other site 320372010174 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 320372010175 ThiS interaction site; other site 320372010176 putative active site [active] 320372010177 tetramer interface [polypeptide binding]; other site 320372010178 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 320372010179 thiS-thiF/thiG interaction site; other site 320372010180 FAD dependent oxidoreductase; Region: DAO; pfam01266 320372010181 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 320372010182 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 320372010183 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 320372010184 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 320372010185 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 320372010186 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 320372010187 amino acid carrier protein; Region: agcS; TIGR00835 320372010188 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 320372010189 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 320372010190 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 320372010191 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 320372010192 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 320372010193 active site 320372010194 dimer interface [polypeptide binding]; other site 320372010195 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 320372010196 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 320372010197 active site 320372010198 FMN binding site [chemical binding]; other site 320372010199 substrate binding site [chemical binding]; other site 320372010200 3Fe-4S cluster binding site [ion binding]; other site 320372010201 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 320372010202 domain interface; other site 320372010203 Transposase IS200 like; Region: Y1_Tnp; cl00848 320372010204 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 320372010205 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 320372010206 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 320372010207 active site 320372010208 catalytic site [active] 320372010209 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 320372010210 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 320372010211 Walker A/P-loop; other site 320372010212 ATP binding site [chemical binding]; other site 320372010213 Q-loop/lid; other site 320372010214 ABC transporter signature motif; other site 320372010215 Walker B; other site 320372010216 D-loop; other site 320372010217 H-loop/switch region; other site 320372010218 TOBE domain; Region: TOBE_2; pfam08402 320372010219 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 320372010220 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372010221 dimer interface [polypeptide binding]; other site 320372010222 conserved gate region; other site 320372010223 putative PBP binding loops; other site 320372010224 ABC-ATPase subunit interface; other site 320372010225 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372010226 dimer interface [polypeptide binding]; other site 320372010227 conserved gate region; other site 320372010228 putative PBP binding loops; other site 320372010229 ABC-ATPase subunit interface; other site 320372010230 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 320372010231 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 320372010232 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 320372010233 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 320372010234 Zn2+ binding site [ion binding]; other site 320372010235 Mg2+ binding site [ion binding]; other site 320372010236 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 320372010237 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 320372010238 active site 320372010239 dimer interface [polypeptide binding]; other site 320372010240 metal binding site [ion binding]; metal-binding site 320372010241 shikimate kinase; Reviewed; Region: aroK; PRK00131 320372010242 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 320372010243 ADP binding site [chemical binding]; other site 320372010244 magnesium binding site [ion binding]; other site 320372010245 putative shikimate binding site; other site 320372010246 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 320372010247 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 320372010248 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 320372010249 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 320372010250 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 320372010251 Transglycosylase; Region: Transgly; pfam00912 320372010252 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 320372010253 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...; Region: Frataxin; cd00503 320372010254 putative iron binding site [ion binding]; other site 320372010255 diaminopimelate decarboxylase; Region: lysA; TIGR01048 320372010256 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 320372010257 active site 320372010258 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 320372010259 substrate binding site [chemical binding]; other site 320372010260 catalytic residues [active] 320372010261 dimer interface [polypeptide binding]; other site 320372010262 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 320372010263 TMAO/DMSO reductase; Reviewed; Region: PRK05363 320372010264 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 320372010265 Moco binding site; other site 320372010266 metal coordination site [ion binding]; other site 320372010267 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 320372010268 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 320372010269 ResB-like family; Region: ResB; pfam05140 320372010270 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 320372010271 ResB-like family; Region: ResB; pfam05140 320372010272 Cytochrome c553 [Energy production and conversion]; Region: COG2863 320372010273 Cytochrome c; Region: Cytochrom_C; cl11414 320372010274 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 320372010275 G1 box; other site 320372010276 GTP/Mg2+ binding site [chemical binding]; other site 320372010277 Switch I region; other site 320372010278 G2 box; other site 320372010279 G3 box; other site 320372010280 Switch II region; other site 320372010281 G4 box; other site 320372010282 G5 box; other site 320372010283 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 320372010284 dimer interface [polypeptide binding]; other site 320372010285 active site 320372010286 aspartate-rich active site metal binding site; other site 320372010287 allosteric magnesium binding site [ion binding]; other site 320372010288 Schiff base residues; other site 320372010289 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 320372010290 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 320372010291 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 320372010292 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 320372010293 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 320372010294 DsbD alpha interface [polypeptide binding]; other site 320372010295 catalytic residues [active] 320372010296 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 320372010297 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 320372010298 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 320372010299 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 320372010300 alphaNTD homodimer interface [polypeptide binding]; other site 320372010301 alphaNTD - beta interaction site [polypeptide binding]; other site 320372010302 alphaNTD - beta' interaction site [polypeptide binding]; other site 320372010303 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 320372010304 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 320372010305 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 320372010306 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 320372010307 RNA binding surface [nucleotide binding]; other site 320372010308 30S ribosomal protein S11; Validated; Region: PRK05309 320372010309 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 320372010310 30S ribosomal protein S13; Region: bact_S13; TIGR03631 320372010311 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 320372010312 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 320372010313 rRNA binding site [nucleotide binding]; other site 320372010314 predicted 30S ribosome binding site; other site 320372010315 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 320372010316 SecY translocase; Region: SecY; pfam00344 320372010317 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 320372010318 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 320372010319 23S rRNA binding site [nucleotide binding]; other site 320372010320 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 320372010321 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 320372010322 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 320372010323 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 320372010324 5S rRNA interface [nucleotide binding]; other site 320372010325 L27 interface [polypeptide binding]; other site 320372010326 23S rRNA interface [nucleotide binding]; other site 320372010327 L5 interface [polypeptide binding]; other site 320372010328 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 320372010329 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 320372010330 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 320372010331 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 320372010332 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 320372010333 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 320372010334 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 320372010335 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 320372010336 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 320372010337 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 320372010338 RNA binding site [nucleotide binding]; other site 320372010339 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 320372010340 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 320372010341 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 320372010342 23S rRNA interface [nucleotide binding]; other site 320372010343 putative translocon interaction site; other site 320372010344 signal recognition particle (SRP54) interaction site; other site 320372010345 L23 interface [polypeptide binding]; other site 320372010346 trigger factor interaction site; other site 320372010347 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 320372010348 23S rRNA interface [nucleotide binding]; other site 320372010349 5S rRNA interface [nucleotide binding]; other site 320372010350 putative antibiotic binding site [chemical binding]; other site 320372010351 L25 interface [polypeptide binding]; other site 320372010352 L27 interface [polypeptide binding]; other site 320372010353 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 320372010354 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 320372010355 G-X-X-G motif; other site 320372010356 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 320372010357 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 320372010358 putative translocon binding site; other site 320372010359 protein-rRNA interface [nucleotide binding]; other site 320372010360 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 320372010361 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 320372010362 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 320372010363 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 320372010364 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 320372010365 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 320372010366 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 320372010367 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 320372010368 elongation factor Tu; Reviewed; Region: PRK00049 320372010369 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 320372010370 G1 box; other site 320372010371 GEF interaction site [polypeptide binding]; other site 320372010372 GTP/Mg2+ binding site [chemical binding]; other site 320372010373 Switch I region; other site 320372010374 G2 box; other site 320372010375 G3 box; other site 320372010376 Switch II region; other site 320372010377 G4 box; other site 320372010378 G5 box; other site 320372010379 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 320372010380 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 320372010381 Antibiotic Binding Site [chemical binding]; other site 320372010382 elongation factor G; Reviewed; Region: PRK00007 320372010383 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 320372010384 G1 box; other site 320372010385 putative GEF interaction site [polypeptide binding]; other site 320372010386 GTP/Mg2+ binding site [chemical binding]; other site 320372010387 Switch I region; other site 320372010388 G2 box; other site 320372010389 G3 box; other site 320372010390 Switch II region; other site 320372010391 G4 box; other site 320372010392 G5 box; other site 320372010393 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 320372010394 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 320372010395 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 320372010396 30S ribosomal protein S7; Validated; Region: PRK05302 320372010397 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 320372010398 S17 interaction site [polypeptide binding]; other site 320372010399 S8 interaction site; other site 320372010400 16S rRNA interaction site [nucleotide binding]; other site 320372010401 streptomycin interaction site [chemical binding]; other site 320372010402 23S rRNA interaction site [nucleotide binding]; other site 320372010403 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 320372010404 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 320372010405 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 320372010406 ATP binding site [chemical binding]; other site 320372010407 putative Mg++ binding site [ion binding]; other site 320372010408 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 320372010409 nucleotide binding region [chemical binding]; other site 320372010410 ATP-binding site [chemical binding]; other site 320372010411 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 320372010412 HRDC domain; Region: HRDC; pfam00570 320372010413 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 320372010414 Transposase; Region: DDE_Tnp_ISL3; pfam01610 320372010415 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 320372010416 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 320372010417 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 320372010418 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 320372010419 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 320372010420 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 320372010421 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 320372010422 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 320372010423 DNA binding site [nucleotide binding] 320372010424 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 320372010425 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 320372010426 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 320372010427 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 320372010428 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 320372010429 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 320372010430 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 320372010431 RPB3 interaction site [polypeptide binding]; other site 320372010432 RPB1 interaction site [polypeptide binding]; other site 320372010433 RPB11 interaction site [polypeptide binding]; other site 320372010434 RPB10 interaction site [polypeptide binding]; other site 320372010435 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 320372010436 peripheral dimer interface [polypeptide binding]; other site 320372010437 core dimer interface [polypeptide binding]; other site 320372010438 L10 interface [polypeptide binding]; other site 320372010439 L11 interface [polypeptide binding]; other site 320372010440 putative EF-Tu interaction site [polypeptide binding]; other site 320372010441 putative EF-G interaction site [polypeptide binding]; other site 320372010442 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 320372010443 23S rRNA interface [nucleotide binding]; other site 320372010444 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 320372010445 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 320372010446 mRNA/rRNA interface [nucleotide binding]; other site 320372010447 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 320372010448 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 320372010449 23S rRNA interface [nucleotide binding]; other site 320372010450 L7/L12 interface [polypeptide binding]; other site 320372010451 putative thiostrepton binding site; other site 320372010452 L25 interface [polypeptide binding]; other site 320372010453 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 320372010454 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 320372010455 putative homodimer interface [polypeptide binding]; other site 320372010456 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 320372010457 heterodimer interface [polypeptide binding]; other site 320372010458 homodimer interface [polypeptide binding]; other site 320372010459 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 320372010460 elongation factor Tu; Reviewed; Region: PRK00049 320372010461 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 320372010462 G1 box; other site 320372010463 GEF interaction site [polypeptide binding]; other site 320372010464 GTP/Mg2+ binding site [chemical binding]; other site 320372010465 Switch I region; other site 320372010466 G2 box; other site 320372010467 G3 box; other site 320372010468 Switch II region; other site 320372010469 G4 box; other site 320372010470 G5 box; other site 320372010471 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 320372010472 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 320372010473 Antibiotic Binding Site [chemical binding]; other site 320372010474 Transposase; Region: HTH_Tnp_1; pfam01527 320372010475 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372010476 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372010477 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372010478 acyl-activating enzyme (AAE) consensus motif; other site 320372010479 AMP binding site [chemical binding]; other site 320372010480 active site 320372010481 CoA binding site [chemical binding]; other site 320372010482 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372010483 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 320372010484 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 320372010485 active site 320372010486 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 320372010487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372010488 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 320372010489 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372010490 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 320372010491 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 320372010492 active site 320372010493 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 320372010494 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 320372010495 putative NADP binding site [chemical binding]; other site 320372010496 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 320372010497 active site 320372010498 Methyltransferase domain; Region: Methyltransf_23; pfam13489 320372010499 Methyltransferase domain; Region: Methyltransf_12; pfam08242 320372010500 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 320372010501 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 320372010502 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 320372010503 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 320372010504 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 320372010505 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372010506 catalytic residue [active] 320372010507 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 320372010508 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 320372010509 active site 320372010510 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 320372010511 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 320372010512 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 320372010513 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 320372010514 Cl- selectivity filter; other site 320372010515 Cl- binding residues [ion binding]; other site 320372010516 pore gating glutamate residue; other site 320372010517 FOG: CBS domain [General function prediction only]; Region: COG0517 320372010518 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 320372010519 MarR family; Region: MarR_2; pfam12802 320372010520 HPP family; Region: HPP; pfam04982 320372010521 FOG: CBS domain [General function prediction only]; Region: COG0517 320372010522 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 320372010523 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372010524 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372010525 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 320372010526 putative effector binding pocket; other site 320372010527 dimerization interface [polypeptide binding]; other site 320372010528 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 320372010529 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372010530 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 320372010531 CAAX protease self-immunity; Region: Abi; cl00558 320372010532 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 320372010533 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 320372010534 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372010535 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372010536 RNA polymerase sigma factor; Provisional; Region: PRK12547 320372010537 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 320372010538 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 320372010539 DNA binding residues [nucleotide binding] 320372010540 YceI-like domain; Region: YceI; pfam04264 320372010541 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 320372010542 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 320372010543 RNA polymerase sigma factor; Provisional; Region: PRK12528 320372010544 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 320372010545 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 320372010546 DNA binding residues [nucleotide binding] 320372010547 fec operon regulator FecR; Reviewed; Region: PRK09774 320372010548 FecR protein; Region: FecR; pfam04773 320372010549 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 320372010550 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 320372010551 N-terminal plug; other site 320372010552 ligand-binding site [chemical binding]; other site 320372010553 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 320372010554 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 320372010555 TM-ABC transporter signature motif; other site 320372010556 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 320372010557 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 320372010558 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 320372010559 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 320372010560 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 320372010561 Walker A/P-loop; other site 320372010562 ATP binding site [chemical binding]; other site 320372010563 Q-loop/lid; other site 320372010564 ABC transporter signature motif; other site 320372010565 Walker B; other site 320372010566 D-loop; other site 320372010567 H-loop/switch region; other site 320372010568 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 320372010569 ABC transporter; Region: ABC_tran; pfam00005 320372010570 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 320372010571 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 320372010572 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 320372010573 active site 320372010574 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 320372010575 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372010576 putative substrate translocation pore; other site 320372010577 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 320372010578 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 320372010579 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 320372010580 dimerization interface [polypeptide binding]; other site 320372010581 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 320372010582 dimer interface [polypeptide binding]; other site 320372010583 phosphorylation site [posttranslational modification] 320372010584 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372010585 ATP binding site [chemical binding]; other site 320372010586 Mg2+ binding site [ion binding]; other site 320372010587 G-X-G motif; other site 320372010588 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 320372010589 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372010590 active site 320372010591 phosphorylation site [posttranslational modification] 320372010592 intermolecular recognition site; other site 320372010593 dimerization interface [polypeptide binding]; other site 320372010594 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 320372010595 DNA binding site [nucleotide binding] 320372010596 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 320372010597 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372010598 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 320372010599 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372010600 Outer membrane efflux protein; Region: OEP; pfam02321 320372010601 Outer membrane efflux protein; Region: OEP; pfam02321 320372010602 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 320372010603 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 320372010604 putative deacylase active site [active] 320372010605 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 320372010606 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 320372010607 hexamer interface [polypeptide binding]; other site 320372010608 ligand binding site [chemical binding]; other site 320372010609 putative active site [active] 320372010610 NAD(P) binding site [chemical binding]; other site 320372010611 H-NS histone family; Region: Histone_HNS; pfam00816 320372010612 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 320372010613 ProQ/FINO family; Region: ProQ; pfam04352 320372010614 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 320372010615 putative RNA binding sites [nucleotide binding]; other site 320372010616 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 320372010617 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 320372010618 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 320372010619 nucleotide binding site [chemical binding]; other site 320372010620 putative NEF/HSP70 interaction site [polypeptide binding]; other site 320372010621 SBD interface [polypeptide binding]; other site 320372010622 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 320372010623 nucleotide binding site [chemical binding]; other site 320372010624 putative NEF/HSP70 interaction site [polypeptide binding]; other site 320372010625 SBD interface [polypeptide binding]; other site 320372010626 DNA-K related protein; Region: DUF3731; pfam12531 320372010627 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 320372010628 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 320372010629 putative active site [active] 320372010630 putative metal binding site [ion binding]; other site 320372010631 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 320372010632 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 320372010633 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 320372010634 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 320372010635 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 320372010636 Soluble P-type ATPase [General function prediction only]; Region: COG4087 320372010637 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 320372010638 Methyltransferase domain; Region: Methyltransf_31; pfam13847 320372010639 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 320372010640 S-adenosylmethionine binding site [chemical binding]; other site 320372010641 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 320372010642 Mannan-binding protein; Region: MVL; pfam12151 320372010643 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 320372010644 dimer interface [polypeptide binding]; other site 320372010645 substrate binding site [chemical binding]; other site 320372010646 ATP binding site [chemical binding]; other site 320372010647 Methyltransferase domain; Region: Methyltransf_11; pfam08241 320372010648 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 320372010649 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 320372010650 dimerization interface [polypeptide binding]; other site 320372010651 active site 320372010652 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_15; cd04673 320372010653 nudix motif; other site 320372010654 Methyltransferase domain; Region: Methyltransf_31; pfam13847 320372010655 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 320372010656 S-adenosylmethionine binding site [chemical binding]; other site 320372010657 Protein of unknown function (DUF971); Region: DUF971; cl01414 320372010658 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 320372010659 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 320372010660 substrate binding pocket [chemical binding]; other site 320372010661 active site 320372010662 iron coordination sites [ion binding]; other site 320372010663 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 320372010664 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 320372010665 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 320372010666 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 320372010667 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 320372010668 Walker A motif; other site 320372010669 ATP binding site [chemical binding]; other site 320372010670 Walker B motif; other site 320372010671 arginine finger; other site 320372010672 Peptidase family M41; Region: Peptidase_M41; pfam01434 320372010673 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 320372010674 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 320372010675 active site 320372010676 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 320372010677 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 320372010678 putative DNA binding site [nucleotide binding]; other site 320372010679 Predicted transcriptional regulator [Transcription]; Region: COG2345 320372010680 putative Zn2+ binding site [ion binding]; other site 320372010681 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 320372010682 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 320372010683 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372010684 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372010685 multidrug efflux protein; Reviewed; Region: PRK09579 320372010686 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 320372010687 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 320372010688 dimerization interface [polypeptide binding]; other site 320372010689 active site 320372010690 FOG: WD40 repeat [General function prediction only]; Region: COG2319 320372010691 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; cd00200 320372010692 structural tetrad; other site 320372010693 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 320372010694 structural tetrad; other site 320372010695 FOG: WD40 repeat [General function prediction only]; Region: COG2319 320372010696 Methyltransferase domain; Region: Methyltransf_23; pfam13489 320372010697 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 320372010698 S-adenosylmethionine binding site [chemical binding]; other site 320372010699 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 320372010700 Uncharacterized conserved protein [Function unknown]; Region: COG1262 320372010701 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 320372010702 catalytic motif [active] 320372010703 Zn binding site [ion binding]; other site 320372010704 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 320372010705 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 320372010706 S-adenosylmethionine binding site [chemical binding]; other site 320372010707 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 320372010708 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 320372010709 active site 320372010710 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372010711 putative substrate translocation pore; other site 320372010712 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 320372010713 PAS fold; Region: PAS_4; pfam08448 320372010714 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 320372010715 DNA binding residues [nucleotide binding] 320372010716 dimerization interface [polypeptide binding]; other site 320372010717 SnoaL-like domain; Region: SnoaL_2; pfam12680 320372010718 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 320372010719 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 320372010720 active site 320372010721 FMN binding site [chemical binding]; other site 320372010722 2,4-decadienoyl-CoA binding site; other site 320372010723 catalytic residue [active] 320372010724 4Fe-4S cluster binding site [ion binding]; other site 320372010725 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 320372010726 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 320372010727 Predicted transcriptional regulators [Transcription]; Region: COG1695 320372010728 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 320372010729 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 320372010730 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 320372010731 ATP binding site [chemical binding]; other site 320372010732 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 320372010733 substrate binding pocket [chemical binding]; other site 320372010734 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 320372010735 active site 320372010736 iron coordination sites [ion binding]; other site 320372010737 Membrane transport protein; Region: Mem_trans; cl09117 320372010738 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 320372010739 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 320372010740 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 320372010741 Ligand Binding Site [chemical binding]; other site 320372010742 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 320372010743 Ligand Binding Site [chemical binding]; other site 320372010744 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 320372010745 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 320372010746 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 320372010747 hydrogenase 4 subunit F; Validated; Region: PRK06458 320372010748 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 320372010749 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 320372010750 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 320372010751 NADH dehydrogenase; Region: NADHdh; cl00469 320372010752 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 320372010753 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 320372010754 regulatory phosphorylation site [posttranslational modification]; other site 320372010755 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 320372010756 S-adenosylmethionine binding site [chemical binding]; other site 320372010757 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 320372010758 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 320372010759 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372010760 putative substrate translocation pore; other site 320372010761 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 320372010762 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 320372010763 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 320372010764 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 320372010765 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 320372010766 4Fe-4S binding domain; Region: Fer4; cl02805 320372010767 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 320372010768 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 320372010769 [4Fe-4S] binding site [ion binding]; other site 320372010770 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 320372010771 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 320372010772 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 320372010773 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 320372010774 molybdopterin cofactor binding site; other site 320372010775 CHASE domain; Region: CHASE; cl01369 320372010776 PAS domain S-box; Region: sensory_box; TIGR00229 320372010777 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 320372010778 putative active site [active] 320372010779 heme pocket [chemical binding]; other site 320372010780 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 320372010781 Histidine kinase; Region: HisKA_3; pfam07730 320372010782 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372010783 ATP binding site [chemical binding]; other site 320372010784 Mg2+ binding site [ion binding]; other site 320372010785 G-X-G motif; other site 320372010786 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 320372010787 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372010788 active site 320372010789 phosphorylation site [posttranslational modification] 320372010790 intermolecular recognition site; other site 320372010791 dimerization interface [polypeptide binding]; other site 320372010792 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 320372010793 DNA binding residues [nucleotide binding] 320372010794 dimerization interface [polypeptide binding]; other site 320372010795 Response regulator receiver domain; Region: Response_reg; pfam00072 320372010796 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372010797 active site 320372010798 phosphorylation site [posttranslational modification] 320372010799 intermolecular recognition site; other site 320372010800 dimerization interface [polypeptide binding]; other site 320372010801 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 320372010802 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 320372010803 ligand binding site [chemical binding]; other site 320372010804 flexible hinge region; other site 320372010805 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 320372010806 putative switch regulator; other site 320372010807 non-specific DNA interactions [nucleotide binding]; other site 320372010808 DNA binding site [nucleotide binding] 320372010809 sequence specific DNA binding site [nucleotide binding]; other site 320372010810 putative cAMP binding site [chemical binding]; other site 320372010811 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 320372010812 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 320372010813 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 320372010814 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 320372010815 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 320372010816 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372010817 putative substrate translocation pore; other site 320372010818 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 320372010819 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 320372010820 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 320372010821 Predicted membrane protein (DUF2070); Region: DUF2070; pfam09843 320372010822 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 320372010823 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 320372010824 active site 320372010825 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372010826 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372010827 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 320372010828 acyl-activating enzyme (AAE) consensus motif; other site 320372010829 AMP binding site [chemical binding]; other site 320372010830 active site 320372010831 CoA binding site [chemical binding]; other site 320372010832 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372010833 Condensation domain; Region: Condensation; pfam00668 320372010834 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372010835 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372010836 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 320372010837 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 320372010838 active site 320372010839 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 320372010840 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 320372010841 putative NADP binding site [chemical binding]; other site 320372010842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372010843 NAD(P) binding site [chemical binding]; other site 320372010844 active site 320372010845 active site 320372010846 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372010847 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 320372010848 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 320372010849 active site 320372010850 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 320372010851 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 320372010852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372010853 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 320372010854 NAD(P) binding site [chemical binding]; other site 320372010855 active site 320372010856 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372010857 Condensation domain; Region: Condensation; pfam00668 320372010858 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372010859 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 320372010860 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 320372010861 acyl-activating enzyme (AAE) consensus motif; other site 320372010862 AMP binding site [chemical binding]; other site 320372010863 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372010864 Condensation domain; Region: Condensation; pfam00668 320372010865 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372010866 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372010867 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 320372010868 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 320372010869 active site 320372010870 Zn binding site [ion binding]; other site 320372010871 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 320372010872 Autoinducer binding domain; Region: Autoind_bind; pfam03472 320372010873 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 320372010874 DNA binding residues [nucleotide binding] 320372010875 dimerization interface [polypeptide binding]; other site 320372010876 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 320372010877 Autoinducer synthetase; Region: Autoind_synth; cl17404 320372010878 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 320372010879 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 320372010880 acyl-activating enzyme (AAE) consensus motif; other site 320372010881 AMP binding site [chemical binding]; other site 320372010882 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 320372010883 shikimate transporter; Provisional; Region: PRK09952 320372010884 Homeodomain-like domain; Region: HTH_23; pfam13384 320372010885 Integrase core domain; Region: rve; pfam00665 320372010886 Integrase core domain; Region: rve_3; cl15866 320372010887 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 320372010888 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 320372010889 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 320372010890 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 320372010891 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 320372010892 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 320372010893 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 320372010894 HTH-like domain; Region: HTH_21; pfam13276 320372010895 Integrase core domain; Region: rve; pfam00665 320372010896 Integrase core domain; Region: rve_3; pfam13683 320372010897 Transposase; Region: HTH_Tnp_1; pfam01527 320372010898 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 320372010899 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 320372010900 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 320372010901 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 320372010902 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 320372010903 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 320372010904 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 320372010905 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 320372010906 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 320372010907 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 320372010908 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 320372010909 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 320372010910 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; pfam03538 320372010911 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 320372010912 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; cl17355 320372010913 DNA binding site [nucleotide binding] 320372010914 Transposase; Region: HTH_Tnp_1; pfam01527 320372010915 HTH-like domain; Region: HTH_21; pfam13276 320372010916 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 320372010917 Integrase core domain; Region: rve; pfam00665 320372010918 Integrase core domain; Region: rve_3; pfam13683 320372010919 Transposase, Mutator family; Region: Transposase_mut; pfam00872 320372010920 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 320372010921 Walker A motif; other site 320372010922 ATP binding site [chemical binding]; other site 320372010923 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 320372010924 Walker B motif; other site 320372010925 arginine finger; other site 320372010926 Integrase core domain; Region: rve; pfam00665 320372010927 Integrase core domain; Region: rve_3; pfam13683 320372010928 Transposase domain (DUF772); Region: DUF772; pfam05598 320372010929 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 320372010930 Family description; Region: VCBS; pfam13517 320372010931 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 320372010932 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 320372010933 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; pfam03538 320372010934 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 320372010935 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 320372010936 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 320372010937 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 320372010938 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 320372010939 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 320372010940 Helix-turn-helix domain; Region: HTH_28; pfam13518 320372010941 Winged helix-turn helix; Region: HTH_29; pfam13551 320372010942 Homeodomain-like domain; Region: HTH_32; pfam13565 320372010943 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 320372010944 DDE superfamily endonuclease; Region: DDE_3; pfam13358 320372010945 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 320372010946 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 320372010947 acyl-CoA synthetase; Validated; Region: PRK05850 320372010948 acyl-activating enzyme (AAE) consensus motif; other site 320372010949 active site 320372010950 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 320372010951 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 320372010952 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 320372010953 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372010954 catalytic residue [active] 320372010955 Condensation domain; Region: Condensation; pfam00668 320372010956 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 320372010957 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 320372010958 acyl-activating enzyme (AAE) consensus motif; other site 320372010959 AMP binding site [chemical binding]; other site 320372010960 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372010961 Condensation domain; Region: Condensation; pfam00668 320372010962 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372010963 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372010964 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372010965 AMP-binding enzyme; Region: AMP-binding; pfam00501 320372010966 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372010967 acyl-activating enzyme (AAE) consensus motif; other site 320372010968 AMP binding site [chemical binding]; other site 320372010969 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372010970 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 320372010971 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 320372010972 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 320372010973 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 320372010974 active site 320372010975 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 320372010976 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 320372010977 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372010978 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 320372010979 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372010980 catalytic residue [active] 320372010981 Condensation domain; Region: Condensation; pfam00668 320372010982 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372010983 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372010984 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 320372010985 acyl-activating enzyme (AAE) consensus motif; other site 320372010986 AMP binding site [chemical binding]; other site 320372010987 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372010988 Condensation domain; Region: Condensation; pfam00668 320372010989 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 320372010990 major capsid protein; Region: PHA00665 320372010991 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372010992 DNA-binding site [nucleotide binding]; DNA binding site 320372010993 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 320372010994 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 320372010995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372010996 homodimer interface [polypeptide binding]; other site 320372010997 catalytic residue [active] 320372010998 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 320372010999 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 320372011000 Uncharacterized conserved protein [Function unknown]; Region: COG2128 320372011001 Predicted small secreted protein [Function unknown]; Region: COG5510 320372011002 aspartate carbamoyltransferase; Provisional; Region: PRK11891 320372011003 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 320372011004 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 320372011005 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 320372011006 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 320372011007 N-terminal plug; other site 320372011008 ligand-binding site [chemical binding]; other site 320372011009 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 320372011010 Sel1 repeat; Region: Sel1; cl02723 320372011011 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 320372011012 Transposase, Mutator family; Region: Transposase_mut; pfam00872 320372011013 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 320372011014 Transposase; Region: HTH_Tnp_1; cl17663 320372011015 Uncharacterized conserved protein [Function unknown]; Region: COG4104 320372011016 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 320372011017 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 320372011018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 320372011019 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 320372011020 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 320372011021 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 320372011022 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 320372011023 H-NS histone family; Region: Histone_HNS; pfam00816 320372011024 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 320372011025 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372011026 metabolite-proton symporter; Region: 2A0106; TIGR00883 320372011027 putative substrate translocation pore; other site 320372011028 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 320372011029 thiamine phosphate binding site [chemical binding]; other site 320372011030 active site 320372011031 pyrophosphate binding site [ion binding]; other site 320372011032 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 320372011033 metal-binding site 320372011034 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 320372011035 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 320372011036 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 320372011037 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372011038 dimer interface [polypeptide binding]; other site 320372011039 putative CheW interface [polypeptide binding]; other site 320372011040 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 320372011041 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 320372011042 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 320372011043 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 320372011044 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 320372011045 ligand binding site [chemical binding]; other site 320372011046 short chain dehydrogenase; Provisional; Region: PRK07074 320372011047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372011048 NAD(P) binding site [chemical binding]; other site 320372011049 active site 320372011050 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 320372011051 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 320372011052 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 320372011053 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 320372011054 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 320372011055 substrate binding pocket [chemical binding]; other site 320372011056 chain length determination region; other site 320372011057 substrate-Mg2+ binding site; other site 320372011058 catalytic residues [active] 320372011059 aspartate-rich region 1; other site 320372011060 active site lid residues [active] 320372011061 aspartate-rich region 2; other site 320372011062 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 320372011063 substrate binding pocket [chemical binding]; other site 320372011064 substrate-Mg2+ binding site; other site 320372011065 aspartate-rich region 1; other site 320372011066 aspartate-rich region 2; other site 320372011067 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 320372011068 putative cation:proton antiport protein; Provisional; Region: PRK10669 320372011069 TrkA-N domain; Region: TrkA_N; pfam02254 320372011070 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 320372011071 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 320372011072 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 320372011073 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 320372011074 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 320372011075 dimer interface [polypeptide binding]; other site 320372011076 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 320372011077 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 320372011078 Cl binding site [ion binding]; other site 320372011079 oligomer interface [polypeptide binding]; other site 320372011080 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 320372011081 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 320372011082 Electron transfer DM13; Region: DM13; pfam10517 320372011083 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 320372011084 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 320372011085 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 320372011086 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 320372011087 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372011088 dimer interface [polypeptide binding]; other site 320372011089 conserved gate region; other site 320372011090 putative PBP binding loops; other site 320372011091 ABC-ATPase subunit interface; other site 320372011092 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 320372011093 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 320372011094 inhibitor binding site; inhibition site 320372011095 catalytic Zn binding site [ion binding]; other site 320372011096 structural Zn binding site [ion binding]; other site 320372011097 NADP binding site [chemical binding]; other site 320372011098 tetramer interface [polypeptide binding]; other site 320372011099 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 320372011100 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372011101 Walker A/P-loop; other site 320372011102 ATP binding site [chemical binding]; other site 320372011103 Q-loop/lid; other site 320372011104 ABC transporter signature motif; other site 320372011105 Walker B; other site 320372011106 D-loop; other site 320372011107 H-loop/switch region; other site 320372011108 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 320372011109 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 320372011110 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372011111 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372011112 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 320372011113 N- and C-terminal domain interface [polypeptide binding]; other site 320372011114 active site 320372011115 MgATP binding site [chemical binding]; other site 320372011116 catalytic site [active] 320372011117 metal binding site [ion binding]; metal-binding site 320372011118 xylulose binding site [chemical binding]; other site 320372011119 homodimer interface [polypeptide binding]; other site 320372011120 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 320372011121 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 320372011122 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 320372011123 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 320372011124 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 320372011125 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 320372011126 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 320372011127 [4Fe-4S] binding site [ion binding]; other site 320372011128 molybdopterin cofactor binding site; other site 320372011129 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 320372011130 molybdopterin cofactor binding site; other site 320372011131 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 320372011132 Flavodoxin; Region: Flavodoxin_1; pfam00258 320372011133 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 320372011134 FAD binding pocket [chemical binding]; other site 320372011135 FAD binding motif [chemical binding]; other site 320372011136 catalytic residues [active] 320372011137 NAD binding pocket [chemical binding]; other site 320372011138 phosphate binding motif [ion binding]; other site 320372011139 beta-alpha-beta structure motif; other site 320372011140 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 320372011141 nitrite reductase subunit NirD; Provisional; Region: PRK14989 320372011142 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 320372011143 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 320372011144 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 320372011145 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 320372011146 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 320372011147 active site 320372011148 SAM binding site [chemical binding]; other site 320372011149 homodimer interface [polypeptide binding]; other site 320372011150 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 320372011151 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372011152 active site 320372011153 phosphorylation site [posttranslational modification] 320372011154 intermolecular recognition site; other site 320372011155 dimerization interface [polypeptide binding]; other site 320372011156 ANTAR domain; Region: ANTAR; pfam03861 320372011157 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 320372011158 NMT1-like family; Region: NMT1_2; pfam13379 320372011159 GTP cyclohydrolase I; Reviewed; Region: PRK12606 320372011160 GTP cyclohydrolase I; Provisional; Region: PLN03044 320372011161 active site 320372011162 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 320372011163 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 320372011164 active site 320372011165 Zn binding site [ion binding]; other site 320372011166 allantoate amidohydrolase; Reviewed; Region: PRK12893 320372011167 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 320372011168 active site 320372011169 metal binding site [ion binding]; metal-binding site 320372011170 dimer interface [polypeptide binding]; other site 320372011171 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372011172 metabolite-proton symporter; Region: 2A0106; TIGR00883 320372011173 putative substrate translocation pore; other site 320372011174 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372011175 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372011176 The 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 320372011177 dimerization interface [polypeptide binding]; other site 320372011178 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372011179 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372011180 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 320372011181 putative effector binding pocket; other site 320372011182 putative dimerization interface [polypeptide binding]; other site 320372011183 short chain dehydrogenase; Provisional; Region: PRK12937 320372011184 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 320372011185 NADP binding site [chemical binding]; other site 320372011186 homodimer interface [polypeptide binding]; other site 320372011187 active site 320372011188 substrate binding site [chemical binding]; other site 320372011189 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 320372011190 CoA-transferase family III; Region: CoA_transf_3; pfam02515 320372011191 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 320372011192 Prostaglandin dehydrogenases; Region: PGDH; cd05288 320372011193 NAD(P) binding site [chemical binding]; other site 320372011194 substrate binding site [chemical binding]; other site 320372011195 dimer interface [polypeptide binding]; other site 320372011196 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 320372011197 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 320372011198 dimer interface [polypeptide binding]; other site 320372011199 active site 320372011200 metal binding site [ion binding]; metal-binding site 320372011201 Peptidase M66; Region: Peptidase_M66; pfam10462 320372011202 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 320372011203 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 320372011204 Domain of unknown function (DUF802); Region: DUF802; pfam05650 320372011205 hypothetical protein; Provisional; Region: PRK09040 320372011206 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 320372011207 ligand binding site [chemical binding]; other site 320372011208 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 320372011209 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 320372011210 Condensation domain; Region: Condensation; pfam00668 320372011211 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372011212 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 320372011213 acyl-activating enzyme (AAE) consensus motif; other site 320372011214 AMP binding site [chemical binding]; other site 320372011215 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372011216 MbtH-like protein; Region: MbtH; pfam03621 320372011217 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372011218 putative substrate translocation pore; other site 320372011219 Major Facilitator Superfamily; Region: MFS_1; pfam07690 320372011220 Condensation domain; Region: Condensation; pfam00668 320372011221 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372011222 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372011223 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372011224 acyl-activating enzyme (AAE) consensus motif; other site 320372011225 AMP binding site [chemical binding]; other site 320372011226 Condensation domain; Region: Condensation; pfam00668 320372011227 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372011228 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372011229 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 320372011230 acyl-activating enzyme (AAE) consensus motif; other site 320372011231 AMP binding site [chemical binding]; other site 320372011232 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372011233 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 320372011234 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 320372011235 active site 320372011236 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 320372011237 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 320372011238 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 320372011239 KR domain; Region: KR; pfam08659 320372011240 putative NADP binding site [chemical binding]; other site 320372011241 active site 320372011242 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372011243 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 320372011244 Biofilm formation and stress response factor; Region: BsmA; pfam10014 320372011245 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 320372011246 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 320372011247 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 320372011248 active site 320372011249 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 320372011250 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 320372011251 active site 320372011252 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 320372011253 acyl-CoA synthetase; Validated; Region: PRK05850 320372011254 acyl-activating enzyme (AAE) consensus motif; other site 320372011255 active site 320372011256 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 320372011257 RNA polymerase factor sigma-70; Validated; Region: PRK09047 320372011258 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 320372011259 DNA binding residues [nucleotide binding] 320372011260 Uncharacterized conserved protein [Function unknown]; Region: COG1739 320372011261 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 320372011262 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 320372011263 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 320372011264 EamA-like transporter family; Region: EamA; pfam00892 320372011265 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 320372011266 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 320372011267 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372011268 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372011269 threonine dehydratase; Reviewed; Region: PRK09224 320372011270 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 320372011271 tetramer interface [polypeptide binding]; other site 320372011272 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372011273 catalytic residue [active] 320372011274 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 320372011275 putative Ile/Val binding site [chemical binding]; other site 320372011276 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 320372011277 putative Ile/Val binding site [chemical binding]; other site 320372011278 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 320372011279 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 320372011280 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 320372011281 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 320372011282 linker region; other site 320372011283 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372011284 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 320372011285 putative acyl-acceptor binding pocket; other site 320372011286 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 320372011287 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 320372011288 putative active site [active] 320372011289 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 320372011290 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 320372011291 Walker A/P-loop; other site 320372011292 ATP binding site [chemical binding]; other site 320372011293 Q-loop/lid; other site 320372011294 ABC transporter signature motif; other site 320372011295 Walker B; other site 320372011296 D-loop; other site 320372011297 H-loop/switch region; other site 320372011298 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 320372011299 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 320372011300 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 320372011301 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 320372011302 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 320372011303 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 320372011304 ATP binding site [chemical binding]; other site 320372011305 putative Mg++ binding site [ion binding]; other site 320372011306 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 320372011307 nucleotide binding region [chemical binding]; other site 320372011308 ATP-binding site [chemical binding]; other site 320372011309 DEAD/H associated; Region: DEAD_assoc; pfam08494 320372011310 putative transporter; Provisional; Region: PRK11021 320372011311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 320372011312 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 320372011313 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 320372011314 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 320372011315 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 320372011316 S-adenosylmethionine binding site [chemical binding]; other site 320372011317 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 320372011318 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 320372011319 metal binding site [ion binding]; metal-binding site 320372011320 active site 320372011321 I-site; other site 320372011322 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 320372011323 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372011324 The 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 320372011325 dimerization interface [polypeptide binding]; other site 320372011326 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 320372011327 heterodimer interface [polypeptide binding]; other site 320372011328 multimer interface [polypeptide binding]; other site 320372011329 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 320372011330 active site 320372011331 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 320372011332 active site 320372011333 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 320372011334 SxDxEG motif; other site 320372011335 active site 320372011336 metal binding site [ion binding]; metal-binding site 320372011337 homopentamer interface [polypeptide binding]; other site 320372011338 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 320372011339 homotetramer interface [polypeptide binding]; other site 320372011340 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 320372011341 cleavage site 320372011342 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 320372011343 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 320372011344 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372011345 dimer interface [polypeptide binding]; other site 320372011346 conserved gate region; other site 320372011347 putative PBP binding loops; other site 320372011348 ABC-ATPase subunit interface; other site 320372011349 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 320372011350 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372011351 dimer interface [polypeptide binding]; other site 320372011352 conserved gate region; other site 320372011353 putative PBP binding loops; other site 320372011354 ABC-ATPase subunit interface; other site 320372011355 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 320372011356 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 320372011357 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 320372011358 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 320372011359 Walker A/P-loop; other site 320372011360 ATP binding site [chemical binding]; other site 320372011361 Q-loop/lid; other site 320372011362 ABC transporter signature motif; other site 320372011363 Walker B; other site 320372011364 D-loop; other site 320372011365 H-loop/switch region; other site 320372011366 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 320372011367 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 320372011368 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 320372011369 Walker A/P-loop; other site 320372011370 ATP binding site [chemical binding]; other site 320372011371 Q-loop/lid; other site 320372011372 ABC transporter signature motif; other site 320372011373 Walker B; other site 320372011374 D-loop; other site 320372011375 H-loop/switch region; other site 320372011376 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 320372011377 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 320372011378 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 320372011379 catalytic nucleophile [active] 320372011380 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 320372011381 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 320372011382 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 320372011383 putative active site [active] 320372011384 BCCT family transporter; Region: BCCT; pfam02028 320372011385 Beta-lactamase; Region: Beta-lactamase; pfam00144 320372011386 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 320372011387 Phosphoesterase family; Region: Phosphoesterase; pfam04185 320372011388 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 320372011389 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 320372011390 active site 320372011391 HIGH motif; other site 320372011392 nucleotide binding site [chemical binding]; other site 320372011393 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 320372011394 active site 320372011395 KMSKS motif; other site 320372011396 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 320372011397 tRNA binding surface [nucleotide binding]; other site 320372011398 anticodon binding site; other site 320372011399 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 320372011400 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 320372011401 EamA-like transporter family; Region: EamA; pfam00892 320372011402 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 320372011403 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 320372011404 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 320372011405 FAD binding domain; Region: FAD_binding_4; pfam01565 320372011406 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 320372011407 Methyltransferase domain; Region: Methyltransf_31; pfam13847 320372011408 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 320372011409 S-adenosylmethionine binding site [chemical binding]; other site 320372011410 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 320372011411 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372011412 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372011413 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 320372011414 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 320372011415 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372011416 catalytic residue [active] 320372011417 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 320372011418 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 320372011419 putative DNA binding site [nucleotide binding]; other site 320372011420 putative Zn2+ binding site [ion binding]; other site 320372011421 AsnC family; Region: AsnC_trans_reg; pfam01037 320372011422 LabA_like proteins; Region: LabA_like; cd06167 320372011423 putative metal binding site [ion binding]; other site 320372011424 Uncharacterized conserved protein [Function unknown]; Region: COG1432 320372011425 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 320372011426 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372011427 putative substrate translocation pore; other site 320372011428 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 320372011429 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372011430 DNA-binding site [nucleotide binding]; DNA binding site 320372011431 UTRA domain; Region: UTRA; pfam07702 320372011432 benzoate transport; Region: 2A0115; TIGR00895 320372011433 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372011434 putative substrate translocation pore; other site 320372011435 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 320372011436 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 320372011437 active site 320372011438 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 320372011439 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 320372011440 active site 320372011441 metal binding site [ion binding]; metal-binding site 320372011442 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 320372011443 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 320372011444 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 320372011445 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 320372011446 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 320372011447 Coenzyme A binding pocket [chemical binding]; other site 320372011448 Predicted transporter component [General function prediction only]; Region: COG2391 320372011449 Sulphur transport; Region: Sulf_transp; pfam04143 320372011450 Predicted transporter component [General function prediction only]; Region: COG2391 320372011451 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 320372011452 dimerization interface [polypeptide binding]; other site 320372011453 putative DNA binding site [nucleotide binding]; other site 320372011454 putative Zn2+ binding site [ion binding]; other site 320372011455 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 320372011456 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 320372011457 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 320372011458 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372011459 catalytic residue [active] 320372011460 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 320372011461 non-specific DNA binding site [nucleotide binding]; other site 320372011462 salt bridge; other site 320372011463 sequence-specific DNA binding site [nucleotide binding]; other site 320372011464 serine O-acetyltransferase; Region: cysE; TIGR01172 320372011465 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 320372011466 trimer interface [polypeptide binding]; other site 320372011467 active site 320372011468 substrate binding site [chemical binding]; other site 320372011469 CoA binding site [chemical binding]; other site 320372011470 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 320372011471 active site residue [active] 320372011472 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 320372011473 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 320372011474 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 320372011475 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372011476 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372011477 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 320372011478 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 320372011479 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 320372011480 Ligand binding site; other site 320372011481 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 320372011482 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372011483 putative substrate translocation pore; other site 320372011484 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372011485 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 320372011486 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 320372011487 active site 320372011488 TDP-binding site; other site 320372011489 acceptor substrate-binding pocket; other site 320372011490 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 320372011491 transcriptional regulator BetI; Validated; Region: PRK00767 320372011492 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372011493 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 320372011494 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 320372011495 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 320372011496 NAD(P) binding site [chemical binding]; other site 320372011497 catalytic residues [active] 320372011498 choline dehydrogenase; Validated; Region: PRK02106 320372011499 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 320372011500 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 320372011501 benzoate transport; Region: 2A0115; TIGR00895 320372011502 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372011503 putative substrate translocation pore; other site 320372011504 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372011505 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372011506 Response regulator receiver domain; Region: Response_reg; pfam00072 320372011507 active site 320372011508 phosphorylation site [posttranslational modification] 320372011509 intermolecular recognition site; other site 320372011510 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 320372011511 PAS fold; Region: PAS_3; pfam08447 320372011512 putative active site [active] 320372011513 heme pocket [chemical binding]; other site 320372011514 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 320372011515 Histidine kinase; Region: HisKA_3; pfam07730 320372011516 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372011517 ATP binding site [chemical binding]; other site 320372011518 Mg2+ binding site [ion binding]; other site 320372011519 G-X-G motif; other site 320372011520 Response regulator receiver domain; Region: Response_reg; pfam00072 320372011521 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372011522 active site 320372011523 phosphorylation site [posttranslational modification] 320372011524 intermolecular recognition site; other site 320372011525 dimerization interface [polypeptide binding]; other site 320372011526 CHASE3 domain; Region: CHASE3; pfam05227 320372011527 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 320372011528 PAS domain; Region: PAS_9; pfam13426 320372011529 putative active site [active] 320372011530 heme pocket [chemical binding]; other site 320372011531 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 320372011532 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 320372011533 putative active site [active] 320372011534 heme pocket [chemical binding]; other site 320372011535 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 320372011536 dimer interface [polypeptide binding]; other site 320372011537 phosphorylation site [posttranslational modification] 320372011538 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372011539 ATP binding site [chemical binding]; other site 320372011540 Mg2+ binding site [ion binding]; other site 320372011541 G-X-G motif; other site 320372011542 OsmC-like protein; Region: OsmC; cl00767 320372011543 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 320372011544 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 320372011545 putative ligand binding site [chemical binding]; other site 320372011546 NAD binding site [chemical binding]; other site 320372011547 catalytic site [active] 320372011548 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 320372011549 DNA-binding site [nucleotide binding]; DNA binding site 320372011550 RNA-binding motif; other site 320372011551 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 320372011552 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 320372011553 active site 320372011554 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 320372011555 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 320372011556 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 320372011557 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 320372011558 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 320372011559 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 320372011560 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 320372011561 hydroxyglutarate oxidase; Provisional; Region: PRK11728 320372011562 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 320372011563 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 320372011564 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 320372011565 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 320372011566 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 320372011567 conserved cys residue [active] 320372011568 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372011569 hypothetical protein; Provisional; Region: PRK11239 320372011570 Protein of unknown function, DUF480; Region: DUF480; pfam04337 320372011571 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 320372011572 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 320372011573 dimer interface [polypeptide binding]; other site 320372011574 N-terminal domain interface [polypeptide binding]; other site 320372011575 substrate binding pocket (H-site) [chemical binding]; other site 320372011576 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 320372011577 nudix motif; other site 320372011578 Low affinity iron permease; Region: Iron_permease; pfam04120 320372011579 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 320372011580 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 320372011581 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 320372011582 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 320372011583 Domain of unknown function (DUF305); Region: DUF305; pfam03713 320372011584 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 320372011585 MgtC family; Region: MgtC; pfam02308 320372011586 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 320372011587 putative catalytic site [active] 320372011588 putative metal binding site [ion binding]; other site 320372011589 putative phosphate binding site [ion binding]; other site 320372011590 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 320372011591 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 320372011592 type II secretion system protein D; Region: type_II_gspD; TIGR02517 320372011593 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 320372011594 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 320372011595 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 320372011596 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372011597 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 320372011598 type III secretion protein HrpB7; Region: HrpB7; TIGR02559 320372011599 type III secretion system ATPase; Provisional; Region: PRK09099 320372011600 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 320372011601 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 320372011602 Walker A motif; other site 320372011603 ATP binding site [chemical binding]; other site 320372011604 Walker B motif; other site 320372011605 type III secretion system protein HrpB; Validated; Region: PRK09098 320372011606 Flagellar assembly protein FliH; Region: FliH; pfam02108 320372011607 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 320372011608 type III secretion protein HrpB2; Region: HrpB2; TIGR02558 320372011609 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 320372011610 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 320372011611 TPR motif; other site 320372011612 binding surface 320372011613 type III secretion system protein HrcU; Validated; Region: PRK09108 320372011614 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 320372011615 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 320372011616 FHIPEP family; Region: FHIPEP; pfam00771 320372011617 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 320372011618 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 320372011619 type III secretion system protein YscR; Provisional; Region: PRK12797 320372011620 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 320372011621 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 320372011622 Tir chaperone protein (CesT) family; Region: CesT; cl08444 320372011623 Cupin domain; Region: Cupin_2; cl17218 320372011624 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 320372011625 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 320372011626 Transcriptional regulators [Transcription]; Region: FadR; COG2186 320372011627 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372011628 DNA-binding site [nucleotide binding]; DNA binding site 320372011629 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 320372011630 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 320372011631 putative aldolase; Validated; Region: PRK08130 320372011632 intersubunit interface [polypeptide binding]; other site 320372011633 active site 320372011634 Zn2+ binding site [ion binding]; other site 320372011635 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372011636 D-galactonate transporter; Region: 2A0114; TIGR00893 320372011637 putative substrate translocation pore; other site 320372011638 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 320372011639 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 320372011640 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 320372011641 putative NAD(P) binding site [chemical binding]; other site 320372011642 active site 320372011643 putative substrate binding site [chemical binding]; other site 320372011644 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 320372011645 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 320372011646 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 320372011647 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 320372011648 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 320372011649 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 320372011650 conserved cys residue [active] 320372011651 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372011652 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372011653 dimer interface [polypeptide binding]; other site 320372011654 conserved gate region; other site 320372011655 putative PBP binding loops; other site 320372011656 ABC-ATPase subunit interface; other site 320372011657 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 320372011658 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 320372011659 Walker A/P-loop; other site 320372011660 ATP binding site [chemical binding]; other site 320372011661 Q-loop/lid; other site 320372011662 ABC transporter signature motif; other site 320372011663 Walker B; other site 320372011664 D-loop; other site 320372011665 H-loop/switch region; other site 320372011666 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 320372011667 Predicted flavoprotein [General function prediction only]; Region: COG0431 320372011668 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 320372011669 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 320372011670 dimerization interface [polypeptide binding]; other site 320372011671 putative DNA binding site [nucleotide binding]; other site 320372011672 putative Zn2+ binding site [ion binding]; other site 320372011673 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 320372011674 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 320372011675 putative metal binding site [ion binding]; other site 320372011676 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 320372011677 Low molecular weight phosphatase family; Region: LMWPc; cd00115 320372011678 active site 320372011679 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 320372011680 arsenical-resistance protein; Region: acr3; TIGR00832 320372011681 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 320372011682 YadA-like C-terminal region; Region: YadA; pfam03895 320372011683 ribonuclease E; Reviewed; Region: rne; PRK10811 320372011684 ribonuclease E; Reviewed; Region: rne; PRK10811 320372011685 ribonuclease E; Reviewed; Region: rne; PRK10811 320372011686 ribonuclease E; Reviewed; Region: rne; PRK10811 320372011687 ribonuclease E; Reviewed; Region: rne; PRK10811 320372011688 ribonuclease E; Reviewed; Region: rne; PRK10811 320372011689 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 320372011690 binding surface 320372011691 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 320372011692 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 320372011693 Haemagglutinin; Region: HIM; pfam05662 320372011694 YadA-like C-terminal region; Region: YadA; pfam03895 320372011695 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 320372011696 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 320372011697 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 320372011698 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 320372011699 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 320372011700 ATP-grasp domain; Region: ATP-grasp_4; cl17255 320372011701 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 320372011702 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 320372011703 carboxyltransferase (CT) interaction site; other site 320372011704 biotinylation site [posttranslational modification]; other site 320372011705 enoyl-CoA hydratase; Provisional; Region: PRK05995 320372011706 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 320372011707 substrate binding site [chemical binding]; other site 320372011708 oxyanion hole (OAH) forming residues; other site 320372011709 trimer interface [polypeptide binding]; other site 320372011710 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 320372011711 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 320372011712 isovaleryl-CoA dehydrogenase; Region: PLN02519 320372011713 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 320372011714 substrate binding site [chemical binding]; other site 320372011715 FAD binding site [chemical binding]; other site 320372011716 catalytic base [active] 320372011717 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372011718 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372011719 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 320372011720 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 320372011721 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 320372011722 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 320372011723 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 320372011724 Multicopper oxidase; Region: Cu-oxidase; pfam00394 320372011725 Cytochrome c; Region: Cytochrom_C; pfam00034 320372011726 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 320372011727 [2Fe-2S] cluster binding site [ion binding]; other site 320372011728 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 320372011729 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 320372011730 alpha subunit interface [polypeptide binding]; other site 320372011731 active site 320372011732 substrate binding site [chemical binding]; other site 320372011733 Fe binding site [ion binding]; other site 320372011734 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 320372011735 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 320372011736 dimer interface [polypeptide binding]; other site 320372011737 active site 320372011738 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 320372011739 catalytic residues [active] 320372011740 substrate binding site [chemical binding]; other site 320372011741 Protein of unknown function (DUF3326); Region: DUF3326; pfam11805 320372011742 Cupin-like domain; Region: Cupin_8; pfam13621 320372011743 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 320372011744 benzoate transport; Region: 2A0115; TIGR00895 320372011745 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372011746 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372011747 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 320372011748 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 320372011749 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 320372011750 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 320372011751 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 320372011752 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 320372011753 dimer interface [polypeptide binding]; other site 320372011754 phosphorylation site [posttranslational modification] 320372011755 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372011756 ATP binding site [chemical binding]; other site 320372011757 Mg2+ binding site [ion binding]; other site 320372011758 G-X-G motif; other site 320372011759 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 320372011760 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372011761 active site 320372011762 phosphorylation site [posttranslational modification] 320372011763 intermolecular recognition site; other site 320372011764 dimerization interface [polypeptide binding]; other site 320372011765 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 320372011766 DNA binding site [nucleotide binding] 320372011767 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 320372011768 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 320372011769 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 320372011770 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 320372011771 Flavodoxin; Region: Flavodoxin_1; pfam00258 320372011772 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like2; cd06201 320372011773 FAD binding pocket [chemical binding]; other site 320372011774 FAD binding motif [chemical binding]; other site 320372011775 catalytic residues [active] 320372011776 NAD binding pocket [chemical binding]; other site 320372011777 phosphate binding motif [ion binding]; other site 320372011778 beta-alpha-beta structure motif; other site 320372011779 ApbE family; Region: ApbE; pfam02424 320372011780 ApbE family; Region: ApbE; pfam02424 320372011781 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 320372011782 aldehyde dehydrogenase family 7 member; Region: PLN02315 320372011783 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 320372011784 tetrameric interface [polypeptide binding]; other site 320372011785 NAD binding site [chemical binding]; other site 320372011786 catalytic residues [active] 320372011787 aminotransferase A; Validated; Region: PRK07683 320372011788 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 320372011789 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372011790 homodimer interface [polypeptide binding]; other site 320372011791 catalytic residue [active] 320372011792 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 320372011793 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 320372011794 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372011795 The 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 320372011796 dimerization interface [polypeptide binding]; other site 320372011797 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 320372011798 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 320372011799 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 320372011800 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372011801 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372011802 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 320372011803 putative active site [active] 320372011804 catalytic site [active] 320372011805 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 320372011806 putative active site [active] 320372011807 catalytic site [active] 320372011808 PLD-like domain; Region: PLDc_2; pfam13091 320372011809 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 320372011810 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 320372011811 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 320372011812 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372011813 D-galactonate transporter; Region: 2A0114; TIGR00893 320372011814 putative substrate translocation pore; other site 320372011815 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372011816 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 320372011817 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 320372011818 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 320372011819 Transcriptional regulators [Transcription]; Region: GntR; COG1802 320372011820 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372011821 DNA-binding site [nucleotide binding]; DNA binding site 320372011822 FCD domain; Region: FCD; pfam07729 320372011823 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 320372011824 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 320372011825 putative active site pocket [active] 320372011826 putative metal binding site [ion binding]; other site 320372011827 putative oxidoreductase; Provisional; Region: PRK10083 320372011828 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 320372011829 putative NAD(P) binding site [chemical binding]; other site 320372011830 catalytic Zn binding site [ion binding]; other site 320372011831 structural Zn binding site [ion binding]; other site 320372011832 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 320372011833 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 320372011834 homodimer interface [polypeptide binding]; other site 320372011835 NAD binding pocket [chemical binding]; other site 320372011836 ATP binding pocket [chemical binding]; other site 320372011837 Mg binding site [ion binding]; other site 320372011838 active-site loop [active] 320372011839 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372011840 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372011841 hypothetical protein; Provisional; Region: PRK02399 320372011842 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 320372011843 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 320372011844 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 320372011845 putative hydrophobic ligand binding site [chemical binding]; other site 320372011846 protein interface [polypeptide binding]; other site 320372011847 gate; other site 320372011848 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 320372011849 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 320372011850 Multicopper oxidase; Region: Cu-oxidase; pfam00394 320372011851 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 320372011852 Cytochrome c; Region: Cytochrom_C; pfam00034 320372011853 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 320372011854 Uncharacterized conserved protein [Function unknown]; Region: COG1262 320372011855 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 320372011856 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 320372011857 Cu(I) binding site [ion binding]; other site 320372011858 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 320372011859 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 320372011860 amidase catalytic site [active] 320372011861 Zn binding residues [ion binding]; other site 320372011862 substrate binding site [chemical binding]; other site 320372011863 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 320372011864 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 320372011865 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 320372011866 trimer interface [polypeptide binding]; other site 320372011867 Haemagglutinin; Region: HIM; pfam05662 320372011868 YadA-like C-terminal region; Region: YadA; pfam03895 320372011869 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 320372011870 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 320372011871 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 320372011872 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372011873 active site 320372011874 phosphorylation site [posttranslational modification] 320372011875 intermolecular recognition site; other site 320372011876 dimerization interface [polypeptide binding]; other site 320372011877 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 320372011878 DNA binding site [nucleotide binding] 320372011879 MASE1; Region: MASE1; cl17823 320372011880 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 320372011881 dimer interface [polypeptide binding]; other site 320372011882 phosphorylation site [posttranslational modification] 320372011883 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372011884 ATP binding site [chemical binding]; other site 320372011885 G-X-G motif; other site 320372011886 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 320372011887 Protein of unknown function (DUF877); Region: DUF877; pfam05943 320372011888 Protein of unknown function (DUF770); Region: DUF770; pfam05591 320372011889 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 320372011890 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 320372011891 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 320372011892 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 320372011893 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 320372011894 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 320372011895 Walker A motif; other site 320372011896 ATP binding site [chemical binding]; other site 320372011897 Walker B motif; other site 320372011898 arginine finger; other site 320372011899 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 320372011900 Walker A motif; other site 320372011901 ATP binding site [chemical binding]; other site 320372011902 Walker B motif; other site 320372011903 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 320372011904 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 320372011905 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 320372011906 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 320372011907 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 320372011908 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 320372011909 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 320372011910 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 320372011911 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 320372011912 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 320372011913 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 320372011914 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 320372011915 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 320372011916 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 320372011917 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 320372011918 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 320372011919 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 320372011920 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 320372011921 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 320372011922 Bacterial Ig-like domain; Region: Big_5; pfam13205 320372011923 Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly...; Region: Peptidase_C19; cd02257 320372011924 active site 320372011925 GTP cyclohydrolase I; Reviewed; Region: PRK12606 320372011926 GTP cyclohydrolase I; Provisional; Region: PLN03044 320372011927 active site 320372011928 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 320372011929 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 320372011930 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372011931 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372011932 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 320372011933 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372011934 active site 320372011935 phosphorylation site [posttranslational modification] 320372011936 intermolecular recognition site; other site 320372011937 dimerization interface [polypeptide binding]; other site 320372011938 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 320372011939 DNA binding residues [nucleotide binding] 320372011940 dimerization interface [polypeptide binding]; other site 320372011941 chaperone protein SicP; Provisional; Region: PRK15329 320372011942 SicP binding; Region: SicP-binding; pfam09119 320372011943 type III secretion protein BopE; Provisional; Region: PRK15278 320372011944 SopE GEF domain; Region: SopE_GEF; pfam07487 320372011945 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 320372011946 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 320372011947 N-acetyl-D-glucosamine binding site [chemical binding]; other site 320372011948 catalytic residue [active] 320372011949 Phosphopantetheine attachment site; Region: PP-binding; cl09936 320372011950 type III effector protein IpaD/SipD/SspD; Region: SipD_IpaD_SspD; TIGR02553 320372011951 H-NS histone family; Region: Histone_HNS; pfam00816 320372011952 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 320372011953 Salmonella-Shigella invasin protein C (IpaC_SipC); Region: IpaC_SipC; pfam09599 320372011954 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 320372011955 chaperone protein SicA; Provisional; Region: PRK15331 320372011956 Tetratricopeptide repeat; Region: TPR_3; pfam07720 320372011957 Tetratricopeptide repeat; Region: TPR_3; pfam07720 320372011958 type III secretion system protein SpaS; Validated; Region: PRK08156 320372011959 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 320372011960 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 320372011961 type III secretion system protein SpaP; Provisional; Region: spaP; PRK12796 320372011962 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 320372011963 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 320372011964 ATP synthase SpaL; Validated; Region: PRK08149 320372011965 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 320372011966 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 320372011967 Walker A motif; other site 320372011968 ATP binding site [chemical binding]; other site 320372011969 Walker B motif; other site 320372011970 Invasion protein B family; Region: Invas_SpaK; cl04129 320372011971 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 320372011972 type III secretion system protein InvA; Provisional; Region: PRK15337 320372011973 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 320372011974 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 320372011975 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 320372011976 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 320372011977 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 320372011978 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372011979 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372011980 type III secretion system needle complex protein PrgH; Provisional; Region: PRK15327; cl12363 320372011981 Type III secretion system protein PrgH-EprH (PrgH); Region: PrgH; pfam09480 320372011982 type III secretion system needle complex protein PrgJ; Provisional; Region: PRK15325 320372011983 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 320372011984 type III secretion apparatus protein OrgA/MxiK; Region: OrgA_MxiK; TIGR02555 320372011985 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 320372011986 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; cl17355 320372011987 DNA binding site [nucleotide binding] 320372011988 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 320372011989 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 320372011990 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 320372011991 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 320372011992 active site 320372011993 Zn binding site [ion binding]; other site 320372011994 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 320372011995 MarR family; Region: MarR_2; cl17246 320372011996 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 320372011997 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 320372011998 dimer interface [polypeptide binding]; other site 320372011999 putative metal binding site [ion binding]; other site 320372012000 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 320372012001 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372012002 putative substrate translocation pore; other site 320372012003 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372012004 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372012005 The 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 320372012006 dimerization interface [polypeptide binding]; other site 320372012007 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 320372012008 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 320372012009 phosphate binding site [ion binding]; other site 320372012010 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 320372012011 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 320372012012 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 320372012013 peptidase domain interface [polypeptide binding]; other site 320372012014 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 320372012015 active site 320372012016 catalytic triad [active] 320372012017 calcium binding site [ion binding]; other site 320372012018 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 320372012019 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 320372012020 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 320372012021 putative DNA binding site [nucleotide binding]; other site 320372012022 putative Zn2+ binding site [ion binding]; other site 320372012023 AsnC family; Region: AsnC_trans_reg; pfam01037 320372012024 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 320372012025 putative hydrophobic ligand binding site [chemical binding]; other site 320372012026 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 320372012027 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 320372012028 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 320372012029 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 320372012030 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372012031 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 320372012032 putative AMP binding site [chemical binding]; other site 320372012033 putative active site [active] 320372012034 acyl-activating enzyme (AAE) consensus motif; other site 320372012035 putative CoA binding site [chemical binding]; other site 320372012036 Autoinducer binding domain; Region: Autoind_bind; pfam03472 320372012037 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 320372012038 DNA binding residues [nucleotide binding] 320372012039 dimerization interface [polypeptide binding]; other site 320372012040 Autoinducer synthetase; Region: Autoind_synth; cl17404 320372012041 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 320372012042 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 320372012043 putative active site [active] 320372012044 putative FMN binding site [chemical binding]; other site 320372012045 putative substrate binding site [chemical binding]; other site 320372012046 putative catalytic residue [active] 320372012047 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 320372012048 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372012049 dimer interface [polypeptide binding]; other site 320372012050 conserved gate region; other site 320372012051 putative PBP binding loops; other site 320372012052 ABC-ATPase subunit interface; other site 320372012053 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 320372012054 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 320372012055 Walker A/P-loop; other site 320372012056 ATP binding site [chemical binding]; other site 320372012057 Q-loop/lid; other site 320372012058 ABC transporter signature motif; other site 320372012059 Walker B; other site 320372012060 D-loop; other site 320372012061 H-loop/switch region; other site 320372012062 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 320372012063 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 320372012064 substrate binding pocket [chemical binding]; other site 320372012065 membrane-bound complex binding site; other site 320372012066 hinge residues; other site 320372012067 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 320372012068 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 320372012069 active site 320372012070 iron coordination sites [ion binding]; other site 320372012071 substrate binding pocket [chemical binding]; other site 320372012072 cellulose synthase operon protein YhjU; Region: cellulose_yhjU; TIGR03368 320372012073 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 320372012074 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 320372012075 DXD motif; other site 320372012076 PilZ domain; Region: PilZ; pfam07238 320372012077 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 320372012078 cellulose biosynthesis protein BcsE; Region: cellulose_bcsE; TIGR03369 320372012079 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 320372012080 endo-1,4-D-glucanase; Provisional; Region: PRK11097 320372012081 cellulose synthase regulator protein; Provisional; Region: PRK11114 320372012082 HipA N-terminal domain; Region: couple_hipA; TIGR03071 320372012083 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 320372012084 HipA-like N-terminal domain; Region: HipA_N; pfam07805 320372012085 HipA-like C-terminal domain; Region: HipA_C; pfam07804 320372012086 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 320372012087 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 320372012088 non-specific DNA binding site [nucleotide binding]; other site 320372012089 salt bridge; other site 320372012090 sequence-specific DNA binding site [nucleotide binding]; other site 320372012091 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372012092 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372012093 The 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 320372012094 dimerization interface [polypeptide binding]; other site 320372012095 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 320372012096 agmatinase; Region: agmatinase; TIGR01230 320372012097 oligomer interface [polypeptide binding]; other site 320372012098 putative active site [active] 320372012099 Mn binding site [ion binding]; other site 320372012100 Transposase; Region: DEDD_Tnp_IS110; pfam01548 320372012101 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 320372012102 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 320372012103 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 320372012104 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 320372012105 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 320372012106 PilM; Region: PilM; pfam07419 320372012107 PilS N terminal; Region: PilS; pfam08805 320372012108 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 320372012109 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 320372012110 Type II/IV secretion system protein; Region: T2SE; pfam00437 320372012111 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 320372012112 Walker A motif; other site 320372012113 ATP binding site [chemical binding]; other site 320372012114 Walker B motif; other site 320372012115 type IV pilus biogenesis protein PilP; Region: pilP_fam; TIGR03021 320372012116 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 320372012117 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 320372012118 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 320372012119 Walker A motif; other site 320372012120 ATP binding site [chemical binding]; other site 320372012121 Walker B motif; other site 320372012122 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 320372012123 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 320372012124 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372012125 active site 320372012126 phosphorylation site [posttranslational modification] 320372012127 intermolecular recognition site; other site 320372012128 dimerization interface [polypeptide binding]; other site 320372012129 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 320372012130 DNA binding site [nucleotide binding] 320372012131 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 320372012132 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372012133 ATP binding site [chemical binding]; other site 320372012134 Mg2+ binding site [ion binding]; other site 320372012135 G-X-G motif; other site 320372012136 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 320372012137 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 320372012138 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372012139 Tir chaperone protein (CesT) family; Region: CesT; cl08444 320372012140 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 320372012141 type III secretion system protein YscR; Provisional; Region: PRK12797 320372012142 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 320372012143 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 320372012144 type III secretion protein HpaP; Region: HpaP; TIGR02557 320372012145 type III secretion protein, HrcV family; Region: hrcV; TIGR01399 320372012146 FHIPEP family; Region: FHIPEP; pfam00771 320372012147 type III secretion system protein HrcU; Validated; Region: PRK09108 320372012148 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 320372012149 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 320372012150 type III secretion protein HrpB2; Region: HrpB2; TIGR02558 320372012151 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 320372012152 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 320372012153 Bacterial type III secretion protein (HrpB4); Region: HrpB4; pfam09502 320372012154 type III secretion system protein HrpB; Validated; Region: PRK09098 320372012155 Flagellar assembly protein FliH; Region: FliH; pfam02108 320372012156 type III secretion system ATPase; Provisional; Region: PRK09099 320372012157 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 320372012158 Walker A motif; other site 320372012159 ATP binding site [chemical binding]; other site 320372012160 Walker B motif; other site 320372012161 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 320372012162 type III secretion protein HrpB7; Region: HrpB7; TIGR02559 320372012163 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 320372012164 substrate binding pocket [chemical binding]; other site 320372012165 active site 320372012166 iron coordination sites [ion binding]; other site 320372012167 Condensation domain; Region: Condensation; pfam00668 320372012168 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372012169 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372012170 acyl-activating enzyme (AAE) consensus motif; other site 320372012171 AMP binding site [chemical binding]; other site 320372012172 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372012173 Condensation domain; Region: Condensation; pfam00668 320372012174 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372012175 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372012176 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372012177 acyl-activating enzyme (AAE) consensus motif; other site 320372012178 AMP binding site [chemical binding]; other site 320372012179 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372012180 Condensation domain; Region: Condensation; pfam00668 320372012181 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372012182 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372012183 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372012184 acyl-activating enzyme (AAE) consensus motif; other site 320372012185 AMP binding site [chemical binding]; other site 320372012186 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372012187 Condensation domain; Region: Condensation; pfam00668 320372012188 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372012189 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 320372012190 acyl-activating enzyme (AAE) consensus motif; other site 320372012191 AMP binding site [chemical binding]; other site 320372012192 active site 320372012193 CoA binding site [chemical binding]; other site 320372012194 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372012195 Condensation domain; Region: Condensation; pfam00668 320372012196 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372012197 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372012198 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 320372012199 acyl-activating enzyme (AAE) consensus motif; other site 320372012200 AMP binding site [chemical binding]; other site 320372012201 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372012202 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 320372012203 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 320372012204 Condensation domain; Region: Condensation; pfam00668 320372012205 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372012206 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 320372012207 acyl-activating enzyme (AAE) consensus motif; other site 320372012208 AMP binding site [chemical binding]; other site 320372012209 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372012210 Condensation domain; Region: Condensation; pfam00668 320372012211 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372012212 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372012213 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372012214 acyl-activating enzyme (AAE) consensus motif; other site 320372012215 AMP binding site [chemical binding]; other site 320372012216 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372012217 Condensation domain; Region: Condensation; pfam00668 320372012218 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372012219 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 320372012220 acyl-activating enzyme (AAE) consensus motif; other site 320372012221 AMP binding site [chemical binding]; other site 320372012222 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372012223 Condensation domain; Region: Condensation; pfam00668 320372012224 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372012225 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372012226 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372012227 acyl-activating enzyme (AAE) consensus motif; other site 320372012228 AMP binding site [chemical binding]; other site 320372012229 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372012230 Condensation domain; Region: Condensation; pfam00668 320372012231 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372012232 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372012233 acyl-activating enzyme (AAE) consensus motif; other site 320372012234 AMP binding site [chemical binding]; other site 320372012235 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372012236 Condensation domain; Region: Condensation; pfam00668 320372012237 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372012238 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372012239 acyl-activating enzyme (AAE) consensus motif; other site 320372012240 AMP binding site [chemical binding]; other site 320372012241 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372012242 Condensation domain; Region: Condensation; pfam00668 320372012243 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372012244 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372012245 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372012246 acyl-activating enzyme (AAE) consensus motif; other site 320372012247 AMP binding site [chemical binding]; other site 320372012248 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372012249 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 320372012250 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 320372012251 inhibitor-cofactor binding pocket; inhibition site 320372012252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372012253 catalytic residue [active] 320372012254 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372012255 putative substrate translocation pore; other site 320372012256 pyruvate dehydrogenase; Provisional; Region: PRK09124 320372012257 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 320372012258 PYR/PP interface [polypeptide binding]; other site 320372012259 tetramer interface [polypeptide binding]; other site 320372012260 dimer interface [polypeptide binding]; other site 320372012261 TPP binding site [chemical binding]; other site 320372012262 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 320372012263 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 320372012264 TPP-binding site [chemical binding]; other site 320372012265 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 320372012266 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 320372012267 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 320372012268 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 320372012269 putative active site [active] 320372012270 putative catalytic site [active] 320372012271 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 320372012272 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372012273 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372012274 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 320372012275 putative dimerization interface [polypeptide binding]; other site 320372012276 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372012277 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372012278 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 320372012279 putative effector binding pocket; other site 320372012280 dimerization interface [polypeptide binding]; other site 320372012281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 320372012282 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372012283 putative substrate translocation pore; other site 320372012284 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372012285 ATP binding site [chemical binding]; other site 320372012286 Mg2+ binding site [ion binding]; other site 320372012287 G-X-G motif; other site 320372012288 Uncharacterized conserved protein [Function unknown]; Region: COG3287 320372012289 FIST N domain; Region: FIST; pfam08495 320372012290 FIST C domain; Region: FIST_C; pfam10442 320372012291 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 320372012292 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372012293 active site 320372012294 phosphorylation site [posttranslational modification] 320372012295 intermolecular recognition site; other site 320372012296 dimerization interface [polypeptide binding]; other site 320372012297 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 320372012298 Zn2+ binding site [ion binding]; other site 320372012299 Mg2+ binding site [ion binding]; other site 320372012300 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 320372012301 Ricin-type beta-trefoil; Region: RICIN; smart00458 320372012302 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 320372012303 putative sugar binding sites [chemical binding]; other site 320372012304 Q-X-W motif; other site 320372012305 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 320372012306 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 320372012307 putative sugar binding sites [chemical binding]; other site 320372012308 Q-X-W motif; other site 320372012309 Kelch motif; Region: Kelch_6; pfam13964 320372012310 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 320372012311 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 320372012312 Cu(I) binding site [ion binding]; other site 320372012313 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 320372012314 active site 320372012315 nucleophile elbow; other site 320372012316 benzoate transport; Region: 2A0115; TIGR00895 320372012317 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 320372012318 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 320372012319 Cytochrome P450; Region: p450; cl12078 320372012320 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 320372012321 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 320372012322 FMN-binding pocket [chemical binding]; other site 320372012323 flavin binding motif; other site 320372012324 phosphate binding motif [ion binding]; other site 320372012325 beta-alpha-beta structure motif; other site 320372012326 NAD binding pocket [chemical binding]; other site 320372012327 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 320372012328 catalytic loop [active] 320372012329 iron binding site [ion binding]; other site 320372012330 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372012331 H+ Antiporter protein; Region: 2A0121; TIGR00900 320372012332 putative substrate translocation pore; other site 320372012333 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 320372012334 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 320372012335 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 320372012336 Amidase; Region: Amidase; cl11426 320372012337 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02755 320372012338 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 320372012339 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 320372012340 G1 box; other site 320372012341 putative GEF interaction site [polypeptide binding]; other site 320372012342 GTP/Mg2+ binding site [chemical binding]; other site 320372012343 Switch I region; other site 320372012344 G2 box; other site 320372012345 G3 box; other site 320372012346 Switch II region; other site 320372012347 G4 box; other site 320372012348 G5 box; other site 320372012349 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 320372012350 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 320372012351 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 320372012352 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 320372012353 selenocysteine synthase; Provisional; Region: PRK04311 320372012354 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 320372012355 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372012356 catalytic residue [active] 320372012357 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 320372012358 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 320372012359 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 320372012360 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 320372012361 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 320372012362 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 320372012363 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 320372012364 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 320372012365 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 320372012366 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 320372012367 molybdopterin cofactor binding site; other site 320372012368 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 320372012369 Uncharacterized conserved protein [Function unknown]; Region: COG1434 320372012370 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 320372012371 putative active site [active] 320372012372 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 320372012373 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 320372012374 substrate binding pocket [chemical binding]; other site 320372012375 membrane-bound complex binding site; other site 320372012376 hinge residues; other site 320372012377 Transposase; Region: DEDD_Tnp_IS110; pfam01548 320372012378 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 320372012379 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372012380 dimer interface [polypeptide binding]; other site 320372012381 conserved gate region; other site 320372012382 putative PBP binding loops; other site 320372012383 ABC-ATPase subunit interface; other site 320372012384 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 320372012385 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 320372012386 Walker A/P-loop; other site 320372012387 ATP binding site [chemical binding]; other site 320372012388 Q-loop/lid; other site 320372012389 ABC transporter signature motif; other site 320372012390 Walker B; other site 320372012391 D-loop; other site 320372012392 H-loop/switch region; other site 320372012393 Protein of unknown function (DUF1602); Region: DUF1602; pfam07673 320372012394 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 320372012395 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 320372012396 active site 320372012397 non-prolyl cis peptide bond; other site 320372012398 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 320372012399 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 320372012400 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 320372012401 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 320372012402 substrate binding pocket [chemical binding]; other site 320372012403 membrane-bound complex binding site; other site 320372012404 hinge residues; other site 320372012405 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 320372012406 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 320372012407 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 320372012408 putative active site [active] 320372012409 Zn binding site [ion binding]; other site 320372012410 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 320372012411 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372012412 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 320372012413 trimer interface [polypeptide binding]; other site 320372012414 eyelet of channel; other site 320372012415 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 320372012416 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 320372012417 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 320372012418 active site 320372012419 tetramer interface; other site 320372012420 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 320372012421 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372012422 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 320372012423 putative ADP-binding pocket [chemical binding]; other site 320372012424 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 320372012425 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372012426 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 320372012427 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 320372012428 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 320372012429 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 320372012430 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 320372012431 NADP-binding site; other site 320372012432 homotetramer interface [polypeptide binding]; other site 320372012433 substrate binding site [chemical binding]; other site 320372012434 homodimer interface [polypeptide binding]; other site 320372012435 active site 320372012436 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 320372012437 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372012438 NAD(P) binding site [chemical binding]; other site 320372012439 active site 320372012440 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 320372012441 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 320372012442 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 320372012443 homodimer interface [polypeptide binding]; other site 320372012444 substrate-cofactor binding pocket; other site 320372012445 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372012446 catalytic residue [active] 320372012447 amidophosphoribosyltransferase; Provisional; Region: PRK09246 320372012448 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 320372012449 active site 320372012450 tetramer interface [polypeptide binding]; other site 320372012451 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 320372012452 active site 320372012453 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 320372012454 Colicin V production protein; Region: Colicin_V; pfam02674 320372012455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 320372012456 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 320372012457 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 320372012458 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 320372012459 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 320372012460 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 320372012461 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 320372012462 substrate binding site [chemical binding]; other site 320372012463 active site 320372012464 catalytic residues [active] 320372012465 heterodimer interface [polypeptide binding]; other site 320372012466 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 320372012467 DNA methylase; Region: N6_N4_Mtase; pfam01555 320372012468 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 320372012469 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 320372012470 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372012471 catalytic residue [active] 320372012472 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 320372012473 active site 320372012474 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 320372012475 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 320372012476 dimerization interface 3.5A [polypeptide binding]; other site 320372012477 active site 320372012478 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 320372012479 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 320372012480 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 320372012481 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 320372012482 tartrate dehydrogenase; Region: TTC; TIGR02089 320372012483 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 320372012484 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 320372012485 substrate binding site [chemical binding]; other site 320372012486 Predicted small secreted protein [Function unknown]; Region: COG5510 320372012487 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 320372012488 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 320372012489 substrate binding site [chemical binding]; other site 320372012490 ligand binding site [chemical binding]; other site 320372012491 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 320372012492 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 320372012493 active site 320372012494 non-prolyl cis peptide bond; other site 320372012495 cyclase homology domain; Region: CHD; cd07302 320372012496 nucleotidyl binding site; other site 320372012497 metal binding site [ion binding]; metal-binding site 320372012498 dimer interface [polypeptide binding]; other site 320372012499 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 320372012500 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 320372012501 putative DNA binding site [nucleotide binding]; other site 320372012502 putative Zn2+ binding site [ion binding]; other site 320372012503 AsnC family; Region: AsnC_trans_reg; pfam01037 320372012504 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 320372012505 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 320372012506 dimer interface [polypeptide binding]; other site 320372012507 TPP-binding site [chemical binding]; other site 320372012508 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 320372012509 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 320372012510 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 320372012511 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 320372012512 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 320372012513 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372012514 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 320372012515 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 320372012516 dimer interface [polypeptide binding]; other site 320372012517 active site 320372012518 citrylCoA binding site [chemical binding]; other site 320372012519 NADH binding [chemical binding]; other site 320372012520 cationic pore residues; other site 320372012521 oxalacetate/citrate binding site [chemical binding]; other site 320372012522 coenzyme A binding site [chemical binding]; other site 320372012523 catalytic triad [active] 320372012524 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 320372012525 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 320372012526 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 320372012527 L-aspartate oxidase; Provisional; Region: PRK06175 320372012528 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 320372012529 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 320372012530 SdhC subunit interface [polypeptide binding]; other site 320372012531 proximal heme binding site [chemical binding]; other site 320372012532 cardiolipin binding site; other site 320372012533 Iron-sulfur protein interface; other site 320372012534 proximal quinone binding site [chemical binding]; other site 320372012535 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 320372012536 Iron-sulfur protein interface; other site 320372012537 proximal quinone binding site [chemical binding]; other site 320372012538 SdhD (CybS) interface [polypeptide binding]; other site 320372012539 proximal heme binding site [chemical binding]; other site 320372012540 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 320372012541 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372012542 DNA-binding site [nucleotide binding]; DNA binding site 320372012543 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 320372012544 malate dehydrogenase; Provisional; Region: PRK05442 320372012545 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 320372012546 NAD(P) binding site [chemical binding]; other site 320372012547 dimer interface [polypeptide binding]; other site 320372012548 malate binding site [chemical binding]; other site 320372012549 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 320372012550 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 320372012551 2-methylcitrate dehydratase; Region: prpD; TIGR02330 320372012552 aconitate hydratase; Provisional; Region: acnA; PRK12881 320372012553 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 320372012554 substrate binding site [chemical binding]; other site 320372012555 ligand binding site [chemical binding]; other site 320372012556 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 320372012557 substrate binding site [chemical binding]; other site 320372012558 haemagglutination activity domain; Region: Haemagg_act; pfam05860 320372012559 Inositol polyphosphate kinase; Region: IPK; cl12283 320372012560 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 320372012561 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 320372012562 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 320372012563 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 320372012564 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 320372012565 Cytochrome c [Energy production and conversion]; Region: COG3258 320372012566 Cytochrome c; Region: Cytochrom_C; pfam00034 320372012567 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 320372012568 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 320372012569 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 320372012570 peptidase domain interface [polypeptide binding]; other site 320372012571 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 320372012572 active site 320372012573 catalytic triad [active] 320372012574 calcium binding site [ion binding]; other site 320372012575 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 320372012576 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372012577 putative PBP binding loops; other site 320372012578 dimer interface [polypeptide binding]; other site 320372012579 ABC-ATPase subunit interface; other site 320372012580 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372012581 dimer interface [polypeptide binding]; other site 320372012582 conserved gate region; other site 320372012583 putative PBP binding loops; other site 320372012584 ABC-ATPase subunit interface; other site 320372012585 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 320372012586 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 320372012587 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 320372012588 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372012589 Walker A/P-loop; other site 320372012590 ATP binding site [chemical binding]; other site 320372012591 Q-loop/lid; other site 320372012592 ABC transporter signature motif; other site 320372012593 Walker B; other site 320372012594 D-loop; other site 320372012595 H-loop/switch region; other site 320372012596 TOBE domain; Region: TOBE_2; pfam08402 320372012597 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 320372012598 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372012599 DNA-binding site [nucleotide binding]; DNA binding site 320372012600 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 320372012601 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372012602 homodimer interface [polypeptide binding]; other site 320372012603 catalytic residue [active] 320372012604 lipase chaperone; Provisional; Region: PRK01294 320372012605 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 320372012606 Lipase (class 2); Region: Lipase_2; pfam01674 320372012607 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 320372012608 PGAP1-like protein; Region: PGAP1; pfam07819 320372012609 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 320372012610 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 320372012611 N-terminal plug; other site 320372012612 ligand-binding site [chemical binding]; other site 320372012613 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 320372012614 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 320372012615 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 320372012616 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 320372012617 E3 interaction surface; other site 320372012618 lipoyl attachment site [posttranslational modification]; other site 320372012619 Cupin domain; Region: Cupin_2; cl17218 320372012620 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 320372012621 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 320372012622 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 320372012623 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 320372012624 Protein of unknown function (DUF938); Region: DUF938; pfam06080 320372012625 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 320372012626 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 320372012627 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 320372012628 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 320372012629 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 320372012630 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 320372012631 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 320372012632 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 320372012633 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 320372012634 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 320372012635 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 320372012636 DNA binding residues [nucleotide binding] 320372012637 DNA primase; Validated; Region: dnaG; PRK05667 320372012638 CHC2 zinc finger; Region: zf-CHC2; pfam01807 320372012639 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 320372012640 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 320372012641 active site 320372012642 metal binding site [ion binding]; metal-binding site 320372012643 interdomain interaction site; other site 320372012644 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 320372012645 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 320372012646 Yqey-like protein; Region: YqeY; pfam09424 320372012647 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 320372012648 Predicted flavoproteins [General function prediction only]; Region: COG2081 320372012649 UGMP family protein; Validated; Region: PRK09604 320372012650 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 320372012651 putative GTP cyclohydrolase; Provisional; Region: PRK13674 320372012652 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 320372012653 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 320372012654 TPP-binding site; other site 320372012655 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 320372012656 PYR/PP interface [polypeptide binding]; other site 320372012657 dimer interface [polypeptide binding]; other site 320372012658 TPP binding site [chemical binding]; other site 320372012659 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 320372012660 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 320372012661 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 320372012662 substrate binding pocket [chemical binding]; other site 320372012663 chain length determination region; other site 320372012664 substrate-Mg2+ binding site; other site 320372012665 catalytic residues [active] 320372012666 aspartate-rich region 1; other site 320372012667 active site lid residues [active] 320372012668 aspartate-rich region 2; other site 320372012669 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 320372012670 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 320372012671 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 320372012672 [2Fe-2S] cluster binding site [ion binding]; other site 320372012673 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 320372012674 alpha subunit interface [polypeptide binding]; other site 320372012675 active site 320372012676 substrate binding site [chemical binding]; other site 320372012677 Fe binding site [ion binding]; other site 320372012678 Transposase domain (DUF772); Region: DUF772; pfam05598 320372012679 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 320372012680 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 320372012681 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 320372012682 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 320372012683 active site residue [active] 320372012684 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 320372012685 active site residue [active] 320372012686 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 320372012687 Predicted membrane protein [Function unknown]; Region: COG4655 320372012688 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 320372012689 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 320372012690 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 320372012691 DNA polymerase I; Provisional; Region: PRK05755 320372012692 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 320372012693 active site 320372012694 metal binding site 1 [ion binding]; metal-binding site 320372012695 putative 5' ssDNA interaction site; other site 320372012696 metal binding site 3; metal-binding site 320372012697 metal binding site 2 [ion binding]; metal-binding site 320372012698 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 320372012699 putative DNA binding site [nucleotide binding]; other site 320372012700 putative metal binding site [ion binding]; other site 320372012701 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 320372012702 active site 320372012703 catalytic site [active] 320372012704 substrate binding site [chemical binding]; other site 320372012705 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 320372012706 active site 320372012707 DNA binding site [nucleotide binding] 320372012708 catalytic site [active] 320372012709 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 320372012710 Uncharacterized conserved protein [Function unknown]; Region: COG1683 320372012711 Phage-related protein [Function unknown]; Region: COG4695; cl01923 320372012712 AMP nucleosidase; Provisional; Region: PRK08292 320372012713 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 320372012714 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 320372012715 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 320372012716 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 320372012717 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 320372012718 putative active site [active] 320372012719 putative substrate binding site [chemical binding]; other site 320372012720 ATP binding site [chemical binding]; other site 320372012721 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 320372012722 MarR family; Region: MarR; pfam01047 320372012723 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 320372012724 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 320372012725 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 320372012726 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 320372012727 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 320372012728 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372012729 putative PBP binding loops; other site 320372012730 dimer interface [polypeptide binding]; other site 320372012731 ABC-ATPase subunit interface; other site 320372012732 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372012733 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 320372012734 Walker A/P-loop; other site 320372012735 ATP binding site [chemical binding]; other site 320372012736 Q-loop/lid; other site 320372012737 ABC transporter signature motif; other site 320372012738 Walker B; other site 320372012739 D-loop; other site 320372012740 H-loop/switch region; other site 320372012741 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 320372012742 molybdenum-pterin binding domain; Region: Mop; TIGR00638 320372012743 TOBE domain; Region: TOBE; cl01440 320372012744 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 320372012745 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 320372012746 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 320372012747 dimer interface [polypeptide binding]; other site 320372012748 hexamer interface [polypeptide binding]; other site 320372012749 active site 2 [active] 320372012750 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372012751 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372012752 The 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 320372012753 dimerization interface [polypeptide binding]; other site 320372012754 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 320372012755 EamA-like transporter family; Region: EamA; pfam00892 320372012756 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 320372012757 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 320372012758 dimer interface [polypeptide binding]; other site 320372012759 phosphorylation site [posttranslational modification] 320372012760 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 320372012761 Domain of unknown function DUF21; Region: DUF21; pfam01595 320372012762 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 320372012763 Transporter associated domain; Region: CorC_HlyC; smart01091 320372012764 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 320372012765 thiamine phosphate binding site [chemical binding]; other site 320372012766 active site 320372012767 pyrophosphate binding site [ion binding]; other site 320372012768 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 320372012769 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 320372012770 active site 320372012771 catalytic site [active] 320372012772 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 320372012773 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 320372012774 S-adenosylmethionine binding site [chemical binding]; other site 320372012775 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 320372012776 putative deacylase active site [active] 320372012777 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 320372012778 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 320372012779 phosphate binding site [ion binding]; other site 320372012780 Homeodomain-like domain; Region: HTH_23; pfam13384 320372012781 Winged helix-turn helix; Region: HTH_29; pfam13551 320372012782 Winged helix-turn helix; Region: HTH_33; pfam13592 320372012783 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 320372012784 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 320372012785 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372012786 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372012787 Autoinducer binding domain; Region: Autoind_bind; pfam03472 320372012788 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 320372012789 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 320372012790 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 320372012791 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 320372012792 active site 320372012793 catalytic residues [active] 320372012794 metal binding site [ion binding]; metal-binding site 320372012795 DmpG-like communication domain; Region: DmpG_comm; pfam07836 320372012796 acetaldehyde dehydrogenase (acetylating); Region: ac_ald_DH_ac; TIGR03215 320372012797 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 320372012798 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 320372012799 Thioesterase domain; Region: Thioesterase; pfam00975 320372012800 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 320372012801 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 320372012802 homodimer interface [polypeptide binding]; other site 320372012803 substrate-cofactor binding pocket; other site 320372012804 catalytic residue [active] 320372012805 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 320372012806 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 320372012807 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 320372012808 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372012809 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372012810 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 320372012811 acyl-activating enzyme (AAE) consensus motif; other site 320372012812 AMP binding site [chemical binding]; other site 320372012813 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 320372012814 dimerization interface [polypeptide binding]; other site 320372012815 putative DNA binding site [nucleotide binding]; other site 320372012816 putative Zn2+ binding site [ion binding]; other site 320372012817 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 320372012818 putative hydrophobic ligand binding site [chemical binding]; other site 320372012819 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 320372012820 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 320372012821 active site 320372012822 metal binding site [ion binding]; metal-binding site 320372012823 RES domain; Region: RES; smart00953 320372012824 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 320372012825 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 320372012826 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 320372012827 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 320372012828 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 320372012829 Cupin domain; Region: Cupin_2; cl17218 320372012830 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372012831 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372012832 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372012833 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 320372012834 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372012835 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 320372012836 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 320372012837 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 320372012838 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372012839 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 320372012840 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 320372012841 active site 320372012842 tyrosine kinase; Provisional; Region: PRK11519 320372012843 Chain length determinant protein; Region: Wzz; cl15801 320372012844 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 320372012845 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 320372012846 polysaccharide export protein Wza; Provisional; Region: PRK15078 320372012847 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 320372012848 SLBB domain; Region: SLBB; pfam10531 320372012849 SLBB domain; Region: SLBB; pfam10531 320372012850 Low molecular weight phosphatase family; Region: LMWPc; cl00105 320372012851 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 320372012852 active site 320372012853 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 320372012854 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 320372012855 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 320372012856 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 320372012857 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 320372012858 Bacterial sugar transferase; Region: Bac_transf; pfam02397 320372012859 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 320372012860 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 320372012861 Substrate binding site; other site 320372012862 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 320372012863 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 320372012864 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 320372012865 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 320372012866 Cysteine-rich domain; Region: CCG; pfam02754 320372012867 Cysteine-rich domain; Region: CCG; pfam02754 320372012868 Rubrerythrin [Energy production and conversion]; Region: COG1592 320372012869 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 320372012870 binuclear metal center [ion binding]; other site 320372012871 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 320372012872 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 320372012873 amidase catalytic site [active] 320372012874 Zn binding residues [ion binding]; other site 320372012875 substrate binding site [chemical binding]; other site 320372012876 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 320372012877 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 320372012878 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 320372012879 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 320372012880 putative hydrophobic ligand binding site [chemical binding]; other site 320372012881 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 320372012882 YCII-related domain; Region: YCII; cl00999 320372012883 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 320372012884 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 320372012885 putative active site [active] 320372012886 putative catalytic site [active] 320372012887 putative Mg binding site IVb [ion binding]; other site 320372012888 putative phosphate binding site [ion binding]; other site 320372012889 putative DNA binding site [nucleotide binding]; other site 320372012890 putative Mg binding site IVa [ion binding]; other site 320372012891 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 320372012892 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 320372012893 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 320372012894 Domain of unknown function DUF20; Region: UPF0118; pfam01594 320372012895 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 320372012896 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 320372012897 N-terminal plug; other site 320372012898 ligand-binding site [chemical binding]; other site 320372012899 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372012900 putative substrate translocation pore; other site 320372012901 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 320372012902 Prostaglandin dehydrogenases; Region: PGDH; cd05288 320372012903 NAD(P) binding site [chemical binding]; other site 320372012904 substrate binding site [chemical binding]; other site 320372012905 dimer interface [polypeptide binding]; other site 320372012906 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372012907 short chain dehydrogenase; Validated; Region: PRK07069 320372012908 NAD(P) binding site [chemical binding]; other site 320372012909 active site 320372012910 short chain dehydrogenase; Provisional; Region: PRK07035 320372012911 classical (c) SDRs; Region: SDR_c; cd05233 320372012912 NAD(P) binding site [chemical binding]; other site 320372012913 active site 320372012914 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 320372012915 catalytic core [active] 320372012916 Phosphotransferase enzyme family; Region: APH; pfam01636 320372012917 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 320372012918 putative active site [active] 320372012919 putative substrate binding site [chemical binding]; other site 320372012920 ATP binding site [chemical binding]; other site 320372012921 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 320372012922 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 320372012923 active site 320372012924 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372012925 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372012926 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 320372012927 substrate binding pocket [chemical binding]; other site 320372012928 dimerization interface [polypeptide binding]; other site 320372012929 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 320372012930 Domain of unknown function (DUF3472); Region: DUF3472; pfam11958 320372012931 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 320372012932 Dyp-type peroxidase family; Region: Dyp_perox_fam; TIGR01413 320372012933 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 320372012934 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 320372012935 Walker A/P-loop; other site 320372012936 ATP binding site [chemical binding]; other site 320372012937 Q-loop/lid; other site 320372012938 ABC transporter signature motif; other site 320372012939 Walker B; other site 320372012940 D-loop; other site 320372012941 H-loop/switch region; other site 320372012942 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 320372012943 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 320372012944 conserved cys residue [active] 320372012945 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 320372012946 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 320372012947 conserved cys residue [active] 320372012948 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372012949 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 320372012950 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 320372012951 active site 320372012952 HIGH motif; other site 320372012953 dimer interface [polypeptide binding]; other site 320372012954 KMSKS motif; other site 320372012955 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 320372012956 transcriptional activator RhaR; Provisional; Region: PRK13501 320372012957 CAAX protease self-immunity; Region: Abi; pfam02517 320372012958 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; cl02915 320372012959 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 320372012960 Cl- selectivity filter; other site 320372012961 Cl- binding residues [ion binding]; other site 320372012962 pore gating glutamate residue; other site 320372012963 dimer interface [polypeptide binding]; other site 320372012964 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 320372012965 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 320372012966 motif II; other site 320372012967 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 320372012968 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372012969 active site 320372012970 phosphorylation site [posttranslational modification] 320372012971 intermolecular recognition site; other site 320372012972 CheB methylesterase; Region: CheB_methylest; pfam01339 320372012973 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 320372012974 putative binding surface; other site 320372012975 active site 320372012976 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 320372012977 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372012978 ATP binding site [chemical binding]; other site 320372012979 Mg2+ binding site [ion binding]; other site 320372012980 G-X-G motif; other site 320372012981 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 320372012982 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372012983 Response regulator receiver domain; Region: Response_reg; pfam00072 320372012984 active site 320372012985 phosphorylation site [posttranslational modification] 320372012986 intermolecular recognition site; other site 320372012987 dimerization interface [polypeptide binding]; other site 320372012988 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 320372012989 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 320372012990 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 320372012991 S-adenosylmethionine binding site [chemical binding]; other site 320372012992 TPR repeat; Region: TPR_11; pfam13414 320372012993 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 320372012994 binding surface 320372012995 TPR motif; other site 320372012996 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 320372012997 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 320372012998 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 320372012999 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 320372013000 dimerization interface [polypeptide binding]; other site 320372013001 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372013002 dimer interface [polypeptide binding]; other site 320372013003 putative CheW interface [polypeptide binding]; other site 320372013004 Response regulator receiver domain; Region: Response_reg; pfam00072 320372013005 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372013006 active site 320372013007 phosphorylation site [posttranslational modification] 320372013008 intermolecular recognition site; other site 320372013009 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 320372013010 dimerization interface [polypeptide binding]; other site 320372013011 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 320372013012 dimer interface [polypeptide binding]; other site 320372013013 phosphorylation site [posttranslational modification] 320372013014 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372013015 ATP binding site [chemical binding]; other site 320372013016 Mg2+ binding site [ion binding]; other site 320372013017 G-X-G motif; other site 320372013018 (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 320372013019 active site 320372013020 catalytic site [active] 320372013021 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 320372013022 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 320372013023 NAD(P) binding site [chemical binding]; other site 320372013024 catalytic residues [active] 320372013025 acetolactate synthase; Reviewed; Region: PRK08322 320372013026 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 320372013027 PYR/PP interface [polypeptide binding]; other site 320372013028 dimer interface [polypeptide binding]; other site 320372013029 TPP binding site [chemical binding]; other site 320372013030 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 320372013031 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 320372013032 TPP-binding site [chemical binding]; other site 320372013033 dimer interface [polypeptide binding]; other site 320372013034 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 320372013035 Protein of unknown function (DUF445); Region: DUF445; pfam04286 320372013036 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 320372013037 PLD-like domain; Region: PLDc_2; pfam13091 320372013038 putative active site [active] 320372013039 catalytic site [active] 320372013040 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 320372013041 PLD-like domain; Region: PLDc_2; pfam13091 320372013042 putative active site [active] 320372013043 catalytic site [active] 320372013044 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 320372013045 HIT family signature motif; other site 320372013046 catalytic residue [active] 320372013047 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 320372013048 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 320372013049 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 320372013050 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 320372013051 [2Fe-2S] cluster binding site [ion binding]; other site 320372013052 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 320372013053 inter-subunit interface; other site 320372013054 Rieske non-heme iron oxygenase (RO) family, Ortho-halobenzoate-1,2-dioxygenase (OHBDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of OHBDO, salicylate 5-hydroxylase (S5H); Region: Rieske_RO_Alpha_OHBDO_like; cd03545 320372013055 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 320372013056 putative alpha subunit interface [polypeptide binding]; other site 320372013057 putative active site [active] 320372013058 putative substrate binding site [chemical binding]; other site 320372013059 Fe binding site [ion binding]; other site 320372013060 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372013061 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 320372013062 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372013063 The 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 320372013064 dimerization interface [polypeptide binding]; other site 320372013065 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 320372013066 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 320372013067 octamer interface [polypeptide binding]; other site 320372013068 active site 320372013069 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 320372013070 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 320372013071 dimer interface [polypeptide binding]; other site 320372013072 active site 320372013073 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 320372013074 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 320372013075 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 320372013076 Subunit I/III interface [polypeptide binding]; other site 320372013077 Subunit III/IV interface [polypeptide binding]; other site 320372013078 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 320372013079 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 320372013080 D-pathway; other site 320372013081 Putative ubiquinol binding site [chemical binding]; other site 320372013082 Low-spin heme (heme b) binding site [chemical binding]; other site 320372013083 Putative water exit pathway; other site 320372013084 Binuclear center (heme o3/CuB) [ion binding]; other site 320372013085 K-pathway; other site 320372013086 Putative proton exit pathway; other site 320372013087 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 320372013088 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 320372013089 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 320372013090 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 320372013091 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 320372013092 active site 320372013093 FMN binding site [chemical binding]; other site 320372013094 2,4-decadienoyl-CoA binding site; other site 320372013095 catalytic residue [active] 320372013096 4Fe-4S cluster binding site [ion binding]; other site 320372013097 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 320372013098 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 320372013099 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 320372013100 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372013101 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372013102 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372013103 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372013104 The 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 320372013105 dimerization interface [polypeptide binding]; other site 320372013106 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372013107 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 320372013108 NAD(P) binding site [chemical binding]; other site 320372013109 active site 320372013110 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 320372013111 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372013112 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 320372013113 dimerizarion interface [polypeptide binding]; other site 320372013114 CrgA pocket; other site 320372013115 substrate binding pocket [chemical binding]; other site 320372013116 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 320372013117 inter-subunit interface; other site 320372013118 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 320372013119 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 320372013120 catalytic loop [active] 320372013121 iron binding site [ion binding]; other site 320372013122 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 320372013123 FAD binding pocket [chemical binding]; other site 320372013124 FAD binding motif [chemical binding]; other site 320372013125 phosphate binding motif [ion binding]; other site 320372013126 beta-alpha-beta structure motif; other site 320372013127 NAD binding pocket [chemical binding]; other site 320372013128 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 320372013129 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 320372013130 putative NAD(P) binding site [chemical binding]; other site 320372013131 active site 320372013132 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 320372013133 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 320372013134 nucleophilic elbow; other site 320372013135 catalytic triad; other site 320372013136 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 320372013137 Isochorismatase family; Region: Isochorismatase; pfam00857 320372013138 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 320372013139 catalytic triad [active] 320372013140 conserved cis-peptide bond; other site 320372013141 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 320372013142 Asp-box motif; other site 320372013143 lysine transporter; Provisional; Region: PRK10836 320372013144 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 320372013145 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 320372013146 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 320372013147 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 320372013148 Beta-Casp domain; Region: Beta-Casp; smart01027 320372013149 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 320372013150 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 320372013151 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 320372013152 NAD(P) binding site [chemical binding]; other site 320372013153 homotetramer interface [polypeptide binding]; other site 320372013154 homodimer interface [polypeptide binding]; other site 320372013155 active site 320372013156 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 320372013157 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 320372013158 ligand binding site [chemical binding]; other site 320372013159 flexible hinge region; other site 320372013160 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 320372013161 putative switch regulator; other site 320372013162 non-specific DNA interactions [nucleotide binding]; other site 320372013163 DNA binding site [nucleotide binding] 320372013164 sequence specific DNA binding site [nucleotide binding]; other site 320372013165 putative cAMP binding site [chemical binding]; other site 320372013166 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 320372013167 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 320372013168 putative NAD(P) binding site [chemical binding]; other site 320372013169 putative substrate binding site [chemical binding]; other site 320372013170 catalytic Zn binding site [ion binding]; other site 320372013171 structural Zn binding site [ion binding]; other site 320372013172 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 320372013173 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 320372013174 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 320372013175 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 320372013176 BON domain; Region: BON; pfam04972 320372013177 BON domain; Region: BON; pfam04972 320372013178 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 320372013179 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 320372013180 ligand-binding site [chemical binding]; other site 320372013181 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 320372013182 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372013183 dimer interface [polypeptide binding]; other site 320372013184 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 320372013185 putative CheW interface [polypeptide binding]; other site 320372013186 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 320372013187 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 320372013188 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 320372013189 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372013190 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 320372013191 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 320372013192 Walker A/P-loop; other site 320372013193 ATP binding site [chemical binding]; other site 320372013194 Q-loop/lid; other site 320372013195 ABC transporter signature motif; other site 320372013196 Walker B; other site 320372013197 D-loop; other site 320372013198 H-loop/switch region; other site 320372013199 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 320372013200 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 320372013201 FtsX-like permease family; Region: FtsX; pfam02687 320372013202 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 320372013203 Ligand Binding Site [chemical binding]; other site 320372013204 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372013205 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 320372013206 HlyD family secretion protein; Region: HlyD; pfam00529 320372013207 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372013208 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 320372013209 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372013210 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 320372013211 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 320372013212 Walker A/P-loop; other site 320372013213 ATP binding site [chemical binding]; other site 320372013214 Q-loop/lid; other site 320372013215 ABC transporter signature motif; other site 320372013216 Walker B; other site 320372013217 D-loop; other site 320372013218 H-loop/switch region; other site 320372013219 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 320372013220 Walker A/P-loop; other site 320372013221 ATP binding site [chemical binding]; other site 320372013222 Q-loop/lid; other site 320372013223 ABC transporter signature motif; other site 320372013224 Walker B; other site 320372013225 D-loop; other site 320372013226 H-loop/switch region; other site 320372013227 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 320372013228 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 320372013229 type VII secretion protein EsaA, N-terminal domain; Region: T7_esaA_Nterm; TIGR03929 320372013230 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 320372013231 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 320372013232 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 320372013233 PAS fold; Region: PAS_4; pfam08448 320372013234 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 320372013235 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 320372013236 dimer interface [polypeptide binding]; other site 320372013237 phosphorylation site [posttranslational modification] 320372013238 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372013239 ATP binding site [chemical binding]; other site 320372013240 Mg2+ binding site [ion binding]; other site 320372013241 G-X-G motif; other site 320372013242 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 320372013243 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372013244 active site 320372013245 phosphorylation site [posttranslational modification] 320372013246 intermolecular recognition site; other site 320372013247 dimerization interface [polypeptide binding]; other site 320372013248 Cache domain; Region: Cache_2; pfam08269 320372013249 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 320372013250 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372013251 dimer interface [polypeptide binding]; other site 320372013252 putative CheW interface [polypeptide binding]; other site 320372013253 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 320372013254 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 320372013255 NAD binding site [chemical binding]; other site 320372013256 substrate binding site [chemical binding]; other site 320372013257 catalytic Zn binding site [ion binding]; other site 320372013258 tetramer interface [polypeptide binding]; other site 320372013259 structural Zn binding site [ion binding]; other site 320372013260 ATP synthase; Region: ATP-synt; pfam00231 320372013261 core domain interface [polypeptide binding]; other site 320372013262 delta subunit interface [polypeptide binding]; other site 320372013263 epsilon subunit interface [polypeptide binding]; other site 320372013264 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 320372013265 type III secretion apparatus H+-transporting two-sector ATPase; Region: III_secr_ATP; TIGR02546 320372013266 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 320372013267 Walker A motif; other site 320372013268 ATP binding site [chemical binding]; other site 320372013269 Walker B motif; other site 320372013270 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 320372013271 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 320372013272 F0F1 ATP synthase subunit C; Provisional; Region: PRK13468 320372013273 F0F1 ATP synthase subunit A; Provisional; Region: PRK13421 320372013274 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 320372013275 F0F1 ATP synthase subunit epsilon; Provisional; Region: PRK13447 320372013276 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 320372013277 gamma subunit interface [polypeptide binding]; other site 320372013278 epsilon subunit interface [polypeptide binding]; other site 320372013279 LBP interface [polypeptide binding]; other site 320372013280 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 320372013281 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 320372013282 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 320372013283 alpha subunit interaction interface [polypeptide binding]; other site 320372013284 Walker A motif; other site 320372013285 ATP binding site [chemical binding]; other site 320372013286 Walker B motif; other site 320372013287 inhibitor binding site; inhibition site 320372013288 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 320372013289 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 320372013290 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 320372013291 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 320372013292 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 320372013293 (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 320372013294 dimer interaction site [polypeptide binding]; other site 320372013295 substrate-binding tunnel; other site 320372013296 active site 320372013297 catalytic site [active] 320372013298 substrate binding site [chemical binding]; other site 320372013299 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 320372013300 acetate kinase; Provisional; Region: PRK07058 320372013301 propionate/acetate kinase; Provisional; Region: PRK12379 320372013302 6-phosphofructokinase 2; Provisional; Region: PRK10294 320372013303 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 320372013304 putative substrate binding site [chemical binding]; other site 320372013305 putative ATP binding site [chemical binding]; other site 320372013306 periplasmic protein; Provisional; Region: PRK10568 320372013307 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 320372013308 BON domain; Region: BON; pfam04972 320372013309 BON domain; Region: BON; pfam04972 320372013310 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 320372013311 active site 320372013312 catalytic motif [active] 320372013313 Zn binding site [ion binding]; other site 320372013314 thymidine phosphorylase; Region: T_phosphoryl; TIGR02643 320372013315 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 320372013316 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 320372013317 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 320372013318 deoxyribose-phosphate aldolase; Provisional; Region: PRK05283 320372013319 catalytic residue [active] 320372013320 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 320372013321 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 320372013322 Nucleoside recognition; Region: Gate; pfam07670 320372013323 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 320372013324 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 320372013325 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 320372013326 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 320372013327 putative C-terminal domain interface [polypeptide binding]; other site 320372013328 putative GSH binding site (G-site) [chemical binding]; other site 320372013329 putative dimer interface [polypeptide binding]; other site 320372013330 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 320372013331 N-terminal domain interface [polypeptide binding]; other site 320372013332 dimer interface [polypeptide binding]; other site 320372013333 substrate binding pocket (H-site) [chemical binding]; other site 320372013334 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372013335 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372013336 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 320372013337 putative effector binding pocket; other site 320372013338 dimerization interface [polypeptide binding]; other site 320372013339 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372013340 short chain dehydrogenase; Provisional; Region: PRK06181 320372013341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372013342 NAD(P) binding site [chemical binding]; other site 320372013343 active site 320372013344 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 320372013345 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 320372013346 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 320372013347 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 320372013348 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 320372013349 metal binding site [ion binding]; metal-binding site 320372013350 active site 320372013351 I-site; other site 320372013352 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 320372013353 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 320372013354 peptidase domain interface [polypeptide binding]; other site 320372013355 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 320372013356 active site 320372013357 catalytic triad [active] 320372013358 calcium binding site [ion binding]; other site 320372013359 Phospholipid methyltransferase; Region: PEMT; cl17370 320372013360 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 320372013361 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 320372013362 Chain length determinant protein; Region: Wzz; pfam02706 320372013363 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 320372013364 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 320372013365 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 320372013366 putative metal binding site [ion binding]; other site 320372013367 putative homodimer interface [polypeptide binding]; other site 320372013368 putative homotetramer interface [polypeptide binding]; other site 320372013369 putative homodimer-homodimer interface [polypeptide binding]; other site 320372013370 putative allosteric switch controlling residues; other site 320372013371 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 320372013372 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 320372013373 Catalytic domain, repeat 1, of Deoxyribonuclease II and similar proteins; Region: PLDc_DNaseII_1; cd09120 320372013374 Deoxyribonuclease II; Region: DNase_II; pfam03265 320372013375 putative active site [active] 320372013376 catalytic site [active] 320372013377 Catalytic domain, repeat 2, of Deoxyribonuclease II and similar proteins; Region: PLDc_DNaseII_2; cd09121 320372013378 putative active site [active] 320372013379 catalytic site [active] 320372013380 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 320372013381 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 320372013382 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 320372013383 active site 320372013384 metal binding site [ion binding]; metal-binding site 320372013385 Ferritin-like; Region: Ferritin-like; pfam12902 320372013386 aldolase II superfamily protein; Provisional; Region: PRK07044 320372013387 intersubunit interface [polypeptide binding]; other site 320372013388 active site 320372013389 Zn2+ binding site [ion binding]; other site 320372013390 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 320372013391 putative uracil binding site [chemical binding]; other site 320372013392 putative active site [active] 320372013393 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 320372013394 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 320372013395 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 320372013396 active site 320372013397 catalytic triad [active] 320372013398 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 320372013399 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372013400 active site 320372013401 phosphorylation site [posttranslational modification] 320372013402 intermolecular recognition site; other site 320372013403 dimerization interface [polypeptide binding]; other site 320372013404 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 320372013405 DNA binding site [nucleotide binding] 320372013406 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 320372013407 dimerization interface [polypeptide binding]; other site 320372013408 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 320372013409 dimer interface [polypeptide binding]; other site 320372013410 phosphorylation site [posttranslational modification] 320372013411 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372013412 ATP binding site [chemical binding]; other site 320372013413 Mg2+ binding site [ion binding]; other site 320372013414 G-X-G motif; other site 320372013415 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 320372013416 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 320372013417 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 320372013418 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 320372013419 Phosphoesterase family; Region: Phosphoesterase; pfam04185 320372013420 Iron permease FTR1 family; Region: FTR1; cl00475 320372013421 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 320372013422 CTP synthase; Region: PyrG; TIGR00337 320372013423 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 320372013424 substrate binding pocket [chemical binding]; other site 320372013425 membrane-bound complex binding site; other site 320372013426 hinge residues; other site 320372013427 Predicted metal-binding protein [General function prediction only]; Region: COG3019 320372013428 Transposase; Region: HTH_Tnp_1; pfam01527 320372013429 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 320372013430 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 320372013431 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 320372013432 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 320372013433 This alignment model represents the N-terminal rieske domain of the oxygenase alpha subunit of aminopyrrolnitrin oxygenase (PrnD). PrnD is a novel Rieske N-oxygenase that catalyzes the final step in the pyrrolnitrin biosynthetic pathway, the oxidation...; Region: Rieske_RO_Alpha_PrnD; cd03537 320372013434 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 320372013435 Transposase, Mutator family; Region: Transposase_mut; pfam00872 320372013436 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 320372013437 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 320372013438 glutaminase active site [active] 320372013439 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 320372013440 dimer interface [polypeptide binding]; other site 320372013441 active site 320372013442 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 320372013443 dimer interface [polypeptide binding]; other site 320372013444 active site 320372013445 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 320372013446 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 320372013447 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 320372013448 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 320372013449 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 320372013450 DXD motif; other site 320372013451 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 320372013452 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 320372013453 active site 320372013454 homodimer interface [polypeptide binding]; other site 320372013455 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 320372013456 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372013457 The 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 320372013458 dimerization interface [polypeptide binding]; other site 320372013459 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 320372013460 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 320372013461 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 320372013462 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 320372013463 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 320372013464 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372013465 catalytic residue [active] 320372013466 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cd00028 320372013467 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 320372013468 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 320372013469 NAD binding site [chemical binding]; other site 320372013470 catalytic Zn binding site [ion binding]; other site 320372013471 structural Zn binding site [ion binding]; other site 320372013472 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 320372013473 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 320372013474 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372013475 catalytic residue [active] 320372013476 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 320372013477 N- and C-terminal domain interface [polypeptide binding]; other site 320372013478 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 320372013479 active site 320372013480 MgATP binding site [chemical binding]; other site 320372013481 catalytic site [active] 320372013482 metal binding site [ion binding]; metal-binding site 320372013483 xylulose binding site [chemical binding]; other site 320372013484 putative homodimer interface [polypeptide binding]; other site 320372013485 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372013486 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372013487 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 320372013488 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 320372013489 active site 320372013490 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 320372013491 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 320372013492 NAD(P) binding site [chemical binding]; other site 320372013493 substrate binding site [chemical binding]; other site 320372013494 homotetramer interface [polypeptide binding]; other site 320372013495 active site 320372013496 homodimer interface [polypeptide binding]; other site 320372013497 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 320372013498 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 320372013499 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 320372013500 active site 320372013501 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 320372013502 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 320372013503 ATP-grasp domain; Region: ATP-grasp_4; cl17255 320372013504 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 320372013505 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 320372013506 carboxyltransferase (CT) interaction site; other site 320372013507 biotinylation site [posttranslational modification]; other site 320372013508 enoyl-CoA hydratase; Provisional; Region: PRK05995 320372013509 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 320372013510 substrate binding site [chemical binding]; other site 320372013511 oxyanion hole (OAH) forming residues; other site 320372013512 trimer interface [polypeptide binding]; other site 320372013513 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 320372013514 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 320372013515 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372013516 acyl-activating enzyme (AAE) consensus motif; other site 320372013517 AMP binding site [chemical binding]; other site 320372013518 active site 320372013519 CoA binding site [chemical binding]; other site 320372013520 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 320372013521 Fatty acid desaturase; Region: FA_desaturase; pfam00487 320372013522 Di-iron ligands [ion binding]; other site 320372013523 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 320372013524 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 320372013525 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 320372013526 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 320372013527 S-adenosylmethionine binding site [chemical binding]; other site 320372013528 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 320372013529 Fatty acid desaturase; Region: FA_desaturase; pfam00487 320372013530 Di-iron ligands [ion binding]; other site 320372013531 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 320372013532 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 320372013533 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 320372013534 active site 320372013535 acyl-CoA synthetase; Validated; Region: PRK05850 320372013536 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 320372013537 acyl-activating enzyme (AAE) consensus motif; other site 320372013538 active site 320372013539 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 320372013540 CoenzymeA binding site [chemical binding]; other site 320372013541 subunit interaction site [polypeptide binding]; other site 320372013542 PHB binding site; other site 320372013543 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 320372013544 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 320372013545 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 320372013546 dimer interface [polypeptide binding]; other site 320372013547 ADP-ribose binding site [chemical binding]; other site 320372013548 active site 320372013549 nudix motif; other site 320372013550 metal binding site [ion binding]; metal-binding site 320372013551 DDE domain; Region: DDE_Tnp_IS240; pfam13610 320372013552 HTH-like domain; Region: HTH_21; pfam13276 320372013553 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 320372013554 Integrase core domain; Region: rve; pfam00665 320372013555 Integrase core domain; Region: rve_3; pfam13683 320372013556 Transposase; Region: HTH_Tnp_1; pfam01527 320372013557 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 320372013558 Domain of Unknown Function (DUF746); Region: DUF746; pfam05344 320372013559 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 320372013560 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 320372013561 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 320372013562 haemagglutination activity domain; Region: Haemagg_act; pfam05860 320372013563 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 320372013564 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 320372013565 RHS Repeat; Region: RHS_repeat; pfam05593 320372013566 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 320372013567 RHS Repeat; Region: RHS_repeat; pfam05593 320372013568 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 320372013569 RHS Repeat; Region: RHS_repeat; pfam05593 320372013570 RHS Repeat; Region: RHS_repeat; pfam05593 320372013571 RHS Repeat; Region: RHS_repeat; pfam05593 320372013572 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 320372013573 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 320372013574 RHS Repeat; Region: RHS_repeat; cl11982 320372013575 RHS Repeat; Region: RHS_repeat; pfam05593 320372013576 RHS protein; Region: RHS; pfam03527 320372013577 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 320372013578 SCP1.201-like deaminase; Region: SCP1201-deam; pfam14428 320372013579 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 320372013580 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 320372013581 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 320372013582 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 320372013583 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 320372013584 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 320372013585 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 320372013586 Transposase; Region: HTH_Tnp_1; pfam01527 320372013587 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 320372013588 Melibiase; Region: Melibiase; pfam02065 320372013589 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 320372013590 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372013591 dimer interface [polypeptide binding]; other site 320372013592 conserved gate region; other site 320372013593 putative PBP binding loops; other site 320372013594 ABC-ATPase subunit interface; other site 320372013595 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 320372013596 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372013597 dimer interface [polypeptide binding]; other site 320372013598 conserved gate region; other site 320372013599 putative PBP binding loops; other site 320372013600 ABC-ATPase subunit interface; other site 320372013601 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 320372013602 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 320372013603 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 320372013604 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 320372013605 Walker A/P-loop; other site 320372013606 ATP binding site [chemical binding]; other site 320372013607 Q-loop/lid; other site 320372013608 ABC transporter signature motif; other site 320372013609 Walker B; other site 320372013610 D-loop; other site 320372013611 H-loop/switch region; other site 320372013612 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 320372013613 Transcriptional regulators [Transcription]; Region: PurR; COG1609 320372013614 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 320372013615 DNA binding site [nucleotide binding] 320372013616 domain linker motif; other site 320372013617 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 320372013618 dimerization interface [polypeptide binding]; other site 320372013619 ligand binding site [chemical binding]; other site 320372013620 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 320372013621 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 320372013622 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 320372013623 Presynaptic Site I dimer interface [polypeptide binding]; other site 320372013624 catalytic residues [active] 320372013625 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 320372013626 Synaptic Flat tetramer interface [polypeptide binding]; other site 320372013627 Synaptic Site I dimer interface [polypeptide binding]; other site 320372013628 DNA binding site [nucleotide binding] 320372013629 RHS Repeat; Region: RHS_repeat; cl11982 320372013630 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 320372013631 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 320372013632 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 320372013633 Domain of Unknown Function (DUF746); Region: DUF746; pfam05344 320372013634 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 320372013635 Domain of Unknown Function (DUF746); Region: DUF746; pfam05344 320372013636 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 320372013637 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 320372013638 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 320372013639 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 320372013640 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 320372013641 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 320372013642 Walker A motif; other site 320372013643 ATP binding site [chemical binding]; other site 320372013644 Walker B motif; other site 320372013645 arginine finger; other site 320372013646 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 320372013647 Walker A motif; other site 320372013648 ATP binding site [chemical binding]; other site 320372013649 Walker B motif; other site 320372013650 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 320372013651 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 320372013652 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 320372013653 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 320372013654 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 320372013655 Protein of unknown function (DUF796); Region: DUF796; pfam05638 320372013656 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 320372013657 Protein of unknown function (DUF877); Region: DUF877; pfam05943 320372013658 Protein of unknown function (DUF770); Region: DUF770; pfam05591 320372013659 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 320372013660 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 320372013661 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 320372013662 Catalytic domain of Protein Kinases; Region: PKc; cd00180 320372013663 active site 320372013664 ATP binding site [chemical binding]; other site 320372013665 substrate binding site [chemical binding]; other site 320372013666 activation loop (A-loop); other site 320372013667 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 320372013668 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 320372013669 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 320372013670 G1 box; other site 320372013671 GTP/Mg2+ binding site [chemical binding]; other site 320372013672 G2 box; other site 320372013673 G3 box; other site 320372013674 Switch II region; other site 320372013675 G4 box; other site 320372013676 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 320372013677 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 320372013678 hypothetical protein; Provisional; Region: PRK07033 320372013679 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 320372013680 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 320372013681 ligand binding site [chemical binding]; other site 320372013682 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 320372013683 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 320372013684 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 320372013685 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 320372013686 phosphopeptide binding site; other site 320372013687 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 320372013688 hypothetical protein; Provisional; Region: PRK07538 320372013689 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 320372013690 Chorismate lyase; Region: Chor_lyase; cl01230 320372013691 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 320372013692 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372013693 NAD(P) binding site [chemical binding]; other site 320372013694 active site 320372013695 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 320372013696 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372013697 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 320372013698 dimerization interface [polypeptide binding]; other site 320372013699 substrate binding pocket [chemical binding]; other site 320372013700 D-serine dehydratase; Provisional; Region: PRK02991 320372013701 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372013702 catalytic residue [active] 320372013703 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 320372013704 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372013705 The 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 320372013706 dimerization interface [polypeptide binding]; other site 320372013707 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 320372013708 dimerization interface [polypeptide binding]; other site 320372013709 putative DNA binding site [nucleotide binding]; other site 320372013710 putative Zn2+ binding site [ion binding]; other site 320372013711 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 320372013712 active site residue [active] 320372013713 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 320372013714 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372013715 Major Facilitator Superfamily; Region: MFS_1; pfam07690 320372013716 putative substrate translocation pore; other site 320372013717 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 320372013718 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 320372013719 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372013720 catalytic residue [active] 320372013721 metabolite-proton symporter; Region: 2A0106; TIGR00883 320372013722 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372013723 putative substrate translocation pore; other site 320372013724 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372013725 The 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 320372013726 dimerization interface [polypeptide binding]; other site 320372013727 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 320372013728 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 320372013729 phosphate binding site [ion binding]; other site 320372013730 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 320372013731 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 320372013732 Transcriptional regulator [Transcription]; Region: IclR; COG1414 320372013733 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 320372013734 Bacterial transcriptional regulator; Region: IclR; pfam01614 320372013735 indole acetimide hydrolase; Validated; Region: PRK07488 320372013736 Amidase; Region: Amidase; pfam01425 320372013737 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 320372013738 CoA binding domain; Region: CoA_binding_2; pfam13380 320372013739 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 320372013740 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 320372013741 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 320372013742 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 320372013743 Coenzyme A binding pocket [chemical binding]; other site 320372013744 H-NS histone family; Region: Histone_HNS; pfam00816 320372013745 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 320372013746 PAS fold; Region: PAS_4; pfam08448 320372013747 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 320372013748 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 320372013749 Walker B motif; other site 320372013750 arginine finger; other site 320372013751 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 320372013752 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 320372013753 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 320372013754 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 320372013755 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 320372013756 active site residue [active] 320372013757 outer membrane porin, OprD family; Region: OprD; pfam03573 320372013758 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 320372013759 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 320372013760 Walker A/P-loop; other site 320372013761 ATP binding site [chemical binding]; other site 320372013762 Q-loop/lid; other site 320372013763 ABC transporter signature motif; other site 320372013764 Walker B; other site 320372013765 D-loop; other site 320372013766 H-loop/switch region; other site 320372013767 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 320372013768 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 320372013769 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 320372013770 Walker A/P-loop; other site 320372013771 ATP binding site [chemical binding]; other site 320372013772 Q-loop/lid; other site 320372013773 ABC transporter signature motif; other site 320372013774 Walker B; other site 320372013775 D-loop; other site 320372013776 H-loop/switch region; other site 320372013777 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 320372013778 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 320372013779 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372013780 dimer interface [polypeptide binding]; other site 320372013781 conserved gate region; other site 320372013782 putative PBP binding loops; other site 320372013783 ABC-ATPase subunit interface; other site 320372013784 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 320372013785 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372013786 dimer interface [polypeptide binding]; other site 320372013787 conserved gate region; other site 320372013788 putative PBP binding loops; other site 320372013789 ABC-ATPase subunit interface; other site 320372013790 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 320372013791 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 320372013792 peptide binding site [polypeptide binding]; other site 320372013793 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 320372013794 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 320372013795 non-specific DNA binding site [nucleotide binding]; other site 320372013796 salt bridge; other site 320372013797 sequence-specific DNA binding site [nucleotide binding]; other site 320372013798 Cupin domain; Region: Cupin_2; pfam07883 320372013799 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 320372013800 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372013801 putative substrate translocation pore; other site 320372013802 POT family; Region: PTR2; cl17359 320372013803 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 320372013804 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 320372013805 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372013806 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 320372013807 substrate binding pocket [chemical binding]; other site 320372013808 dimerization interface [polypeptide binding]; other site 320372013809 Putative cyclase; Region: Cyclase; cl00814 320372013810 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 320372013811 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 320372013812 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 320372013813 CoA-transferase family III; Region: CoA_transf_3; pfam02515 320372013814 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 320372013815 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 320372013816 NAD(P) binding site [chemical binding]; other site 320372013817 Isochorismatase family; Region: Isochorismatase; pfam00857 320372013818 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 320372013819 catalytic triad [active] 320372013820 conserved cis-peptide bond; other site 320372013821 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372013822 Major Facilitator Superfamily; Region: MFS_1; pfam07690 320372013823 putative substrate translocation pore; other site 320372013824 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372013825 phosphate:H+ symporter; Region: 2A0109; TIGR00887 320372013826 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372013827 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372013828 putative substrate translocation pore; other site 320372013829 Putative cyclase; Region: Cyclase; cl00814 320372013830 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 320372013831 CoA-transferase family III; Region: CoA_transf_3; pfam02515 320372013832 Transcriptional regulator [Transcription]; Region: IclR; COG1414 320372013833 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 320372013834 Bacterial transcriptional regulator; Region: IclR; pfam01614 320372013835 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 320372013836 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372013837 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 320372013838 trimer interface [polypeptide binding]; other site 320372013839 eyelet of channel; other site 320372013840 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 320372013841 2-methylcitrate dehydratase; Region: prpD; TIGR02330 320372013842 OpgC protein; Region: OpgC_C; pfam10129 320372013843 Predicted permeases [General function prediction only]; Region: RarD; COG2962 320372013844 acylphosphatase; Provisional; Region: PRK14424 320372013845 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 320372013846 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 320372013847 putative NADP binding site [chemical binding]; other site 320372013848 putative substrate binding site [chemical binding]; other site 320372013849 active site 320372013850 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 320372013851 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 320372013852 active site 320372013853 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 320372013854 LytB protein; Region: LYTB; pfam02401 320372013855 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 320372013856 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 320372013857 FeS/SAM binding site; other site 320372013858 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 320372013859 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 320372013860 aminotransferase; Validated; Region: PRK07046 320372013861 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 320372013862 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372013863 catalytic residue [active] 320372013864 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 320372013865 sequence-specific DNA binding site [nucleotide binding]; other site 320372013866 salt bridge; other site 320372013867 Protein of unknown function (DUF466); Region: DUF466; pfam04328 320372013868 carbon starvation protein A; Provisional; Region: PRK15015 320372013869 Carbon starvation protein CstA; Region: CstA; pfam02554 320372013870 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 320372013871 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 320372013872 Uncharacterized conserved protein [Function unknown]; Region: COG5476 320372013873 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 320372013874 MlrC C-terminus; Region: MlrC_C; pfam07171 320372013875 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372013876 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372013877 The 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 320372013878 dimerization interface [polypeptide binding]; other site 320372013879 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 320372013880 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 320372013881 metal binding site [ion binding]; metal-binding site 320372013882 SnoaL-like domain; Region: SnoaL_2; pfam12680 320372013883 Predicted membrane protein [Function unknown]; Region: COG2246 320372013884 GtrA-like protein; Region: GtrA; pfam04138 320372013885 Methyltransferase domain; Region: Methyltransf_23; pfam13489 320372013886 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 320372013887 S-adenosylmethionine binding site [chemical binding]; other site 320372013888 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 320372013889 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 320372013890 Ligand binding site; other site 320372013891 Putative Catalytic site; other site 320372013892 DXD motif; other site 320372013893 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 320372013894 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 320372013895 Flp/Fap pilin component; Region: Flp_Fap; cl01585 320372013896 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 320372013897 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 320372013898 active site 320372013899 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 320372013900 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 320372013901 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 320372013902 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 320372013903 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 320372013904 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 320372013905 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 320372013906 TadE-like protein; Region: TadE; pfam07811 320372013907 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 320372013908 TadE-like protein; Region: TadE; pfam07811 320372013909 AAA domain; Region: AAA_31; pfam13614 320372013910 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 320372013911 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 320372013912 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 320372013913 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 320372013914 ATP binding site [chemical binding]; other site 320372013915 Walker A motif; other site 320372013916 hexamer interface [polypeptide binding]; other site 320372013917 Walker B motif; other site 320372013918 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 320372013919 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 320372013920 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 320372013921 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 320372013922 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 320372013923 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 320372013924 putative DNA binding site [nucleotide binding]; other site 320372013925 putative Zn2+ binding site [ion binding]; other site 320372013926 AsnC family; Region: AsnC_trans_reg; pfam01037 320372013927 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 320372013928 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 320372013929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372013930 homodimer interface [polypeptide binding]; other site 320372013931 catalytic residue [active] 320372013932 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 320372013933 homotrimer interaction site [polypeptide binding]; other site 320372013934 putative active site [active] 320372013935 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372013936 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 320372013937 trimer interface [polypeptide binding]; other site 320372013938 eyelet of channel; other site 320372013939 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 320372013940 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372013941 DNA-binding site [nucleotide binding]; DNA binding site 320372013942 Transcriptional regulators [Transcription]; Region: FadR; COG2186 320372013943 Uncharacterized conserved protein [Function unknown]; Region: COG5476 320372013944 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 320372013945 MlrC C-terminus; Region: MlrC_C; pfam07171 320372013946 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 320372013947 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372013948 putative substrate translocation pore; other site 320372013949 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372013950 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372013951 The 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 320372013952 dimerization interface [polypeptide binding]; other site 320372013953 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 320372013954 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 320372013955 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 320372013956 active site 320372013957 DNA binding site [nucleotide binding] 320372013958 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 320372013959 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 320372013960 DNA binding site [nucleotide binding] 320372013961 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 320372013962 nucleotide binding site [chemical binding]; other site 320372013963 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 320372013964 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 320372013965 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 320372013966 putative DNA binding site [nucleotide binding]; other site 320372013967 putative homodimer interface [polypeptide binding]; other site 320372013968 Predicted membrane protein [Function unknown]; Region: COG2323 320372013969 hydroperoxidase II; Provisional; Region: katE; PRK11249 320372013970 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 320372013971 tetramer interface [polypeptide binding]; other site 320372013972 heme binding pocket [chemical binding]; other site 320372013973 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 320372013974 domain interactions; other site 320372013975 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 320372013976 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 320372013977 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 320372013978 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 320372013979 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 320372013980 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 320372013981 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 320372013982 dimanganese center [ion binding]; other site 320372013983 Domain of unknown function (DUF892); Region: DUF892; pfam05974 320372013984 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 320372013985 MltA-interacting protein MipA; Region: MipA; cl01504 320372013986 FOG: CBS domain [General function prediction only]; Region: COG0517 320372013987 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 320372013988 PRC-barrel domain; Region: PRC; pfam05239 320372013989 Response regulator receiver domain; Region: Response_reg; pfam00072 320372013990 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372013991 active site 320372013992 phosphorylation site [posttranslational modification] 320372013993 intermolecular recognition site; other site 320372013994 dimerization interface [polypeptide binding]; other site 320372013995 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 320372013996 Fe-S cluster binding site [ion binding]; other site 320372013997 active site 320372013998 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 320372013999 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 320372014000 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 320372014001 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 320372014002 NAD binding site [chemical binding]; other site 320372014003 catalytic Zn binding site [ion binding]; other site 320372014004 structural Zn binding site [ion binding]; other site 320372014005 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 320372014006 short chain dehydrogenase; Provisional; Region: PRK06701 320372014007 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 320372014008 NAD binding site [chemical binding]; other site 320372014009 metal binding site [ion binding]; metal-binding site 320372014010 active site 320372014011 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 320372014012 short chain dehydrogenase; Provisional; Region: PRK07109 320372014013 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 320372014014 putative NAD(P) binding site [chemical binding]; other site 320372014015 active site 320372014016 BON domain; Region: BON; pfam04972 320372014017 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 320372014018 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 320372014019 putative ADP-binding pocket [chemical binding]; other site 320372014020 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 320372014021 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 320372014022 NAD binding site [chemical binding]; other site 320372014023 putative substrate binding site 2 [chemical binding]; other site 320372014024 putative substrate binding site 1 [chemical binding]; other site 320372014025 active site 320372014026 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 320372014027 PAS domain; Region: PAS_9; pfam13426 320372014028 putative active site [active] 320372014029 heme pocket [chemical binding]; other site 320372014030 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 320372014031 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 320372014032 putative active site [active] 320372014033 heme pocket [chemical binding]; other site 320372014034 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 320372014035 dimer interface [polypeptide binding]; other site 320372014036 phosphorylation site [posttranslational modification] 320372014037 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372014038 ATP binding site [chemical binding]; other site 320372014039 Mg2+ binding site [ion binding]; other site 320372014040 G-X-G motif; other site 320372014041 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 320372014042 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372014043 active site 320372014044 phosphorylation site [posttranslational modification] 320372014045 intermolecular recognition site; other site 320372014046 dimerization interface [polypeptide binding]; other site 320372014047 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 320372014048 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 320372014049 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 320372014050 active site 320372014051 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 320372014052 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372014053 active site 320372014054 phosphorylation site [posttranslational modification] 320372014055 intermolecular recognition site; other site 320372014056 dimerization interface [polypeptide binding]; other site 320372014057 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 320372014058 Walker A motif; other site 320372014059 ATP binding site [chemical binding]; other site 320372014060 Walker B motif; other site 320372014061 arginine finger; other site 320372014062 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 320372014063 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 320372014064 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 320372014065 Walker A motif; other site 320372014066 ATP binding site [chemical binding]; other site 320372014067 Walker B motif; other site 320372014068 arginine finger; other site 320372014069 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 320372014070 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 320372014071 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 320372014072 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 320372014073 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 320372014074 putative active site [active] 320372014075 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 320372014076 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 320372014077 active site 320372014078 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 320372014079 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 320372014080 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 320372014081 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 320372014082 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 320372014083 putative active site [active] 320372014084 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 320372014085 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 320372014086 active site 320372014087 motif I; other site 320372014088 motif II; other site 320372014089 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 320372014090 classical (c) SDRs; Region: SDR_c; cd05233 320372014091 NAD(P) binding site [chemical binding]; other site 320372014092 active site 320372014093 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 320372014094 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 320372014095 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372014096 Walker A/P-loop; other site 320372014097 ATP binding site [chemical binding]; other site 320372014098 Q-loop/lid; other site 320372014099 ABC transporter signature motif; other site 320372014100 Walker B; other site 320372014101 D-loop; other site 320372014102 H-loop/switch region; other site 320372014103 Histidine kinase-like ATPases; This family includes several ATP-binding 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 320372014104 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372014105 Response regulator receiver domain; Region: Response_reg; pfam00072 320372014106 active site 320372014107 phosphorylation site [posttranslational modification] 320372014108 intermolecular recognition site; other site 320372014109 dimerization interface [polypeptide binding]; other site 320372014110 BON domain; Region: BON; pfam04972 320372014111 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 320372014112 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 320372014113 succinate dehydrogenase iron-sulfur subunit; Provisional; Region: PRK12575 320372014114 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 320372014115 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 320372014116 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 320372014117 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 320372014118 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 320372014119 active site 320372014120 non-prolyl cis peptide bond; other site 320372014121 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 320372014122 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 320372014123 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 320372014124 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372014125 putative substrate translocation pore; other site 320372014126 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 320372014127 Autoinducer binding domain; Region: Autoind_bind; pfam03472 320372014128 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 320372014129 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 320372014130 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 320372014131 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 320372014132 E3 interaction surface; other site 320372014133 lipoyl attachment site [posttranslational modification]; other site 320372014134 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 320372014135 e3 binding domain; Region: E3_binding; pfam02817 320372014136 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 320372014137 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 320372014138 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 320372014139 alpha subunit interface [polypeptide binding]; other site 320372014140 TPP binding site [chemical binding]; other site 320372014141 heterodimer interface [polypeptide binding]; other site 320372014142 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 320372014143 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 320372014144 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 320372014145 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 320372014146 tetramer interface [polypeptide binding]; other site 320372014147 TPP-binding site [chemical binding]; other site 320372014148 heterodimer interface [polypeptide binding]; other site 320372014149 phosphorylation loop region [posttranslational modification] 320372014150 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 320372014151 putative hydrophobic ligand binding site [chemical binding]; other site 320372014152 protein interface [polypeptide binding]; other site 320372014153 gate; other site 320372014154 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 320372014155 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 320372014156 hydrophobic ligand binding site; other site 320372014157 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372014158 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372014159 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 320372014160 substrate binding pocket [chemical binding]; other site 320372014161 dimerization interface [polypeptide binding]; other site 320372014162 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 320372014163 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 320372014164 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 320372014165 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 320372014166 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 320372014167 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 320372014168 nucleophile elbow; other site 320372014169 Patatin phospholipase; Region: DUF3734; pfam12536 320372014170 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 320372014171 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 320372014172 ribonucleotide reductase-like protein; Provisional; Region: PRK06948 320372014173 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 320372014174 active site 320372014175 dimer interface [polypeptide binding]; other site 320372014176 effector binding site; other site 320372014177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 320372014178 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 320372014179 AAA domain; Region: AAA_33; pfam13671 320372014180 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 320372014181 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 320372014182 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 320372014183 Sulfate transporter family; Region: Sulfate_transp; pfam00916 320372014184 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 320372014185 FOG: CBS domain [General function prediction only]; Region: COG0517 320372014186 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 320372014187 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 320372014188 putative FMN binding site [chemical binding]; other site 320372014189 NADPH bind site [chemical binding]; other site 320372014190 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 320372014191 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 320372014192 putative dimer interface [polypeptide binding]; other site 320372014193 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372014194 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 320372014195 trimer interface [polypeptide binding]; other site 320372014196 eyelet of channel; other site 320372014197 putative acyl-CoA synthetase; Provisional; Region: PRK06018 320372014198 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372014199 acyl-activating enzyme (AAE) consensus motif; other site 320372014200 AMP binding site [chemical binding]; other site 320372014201 active site 320372014202 CoA binding site [chemical binding]; other site 320372014203 AAA ATPase domain; Region: AAA_16; pfam13191 320372014204 AAA domain; Region: AAA_22; pfam13401 320372014205 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 320372014206 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 320372014207 DNA binding residues [nucleotide binding] 320372014208 dimerization interface [polypeptide binding]; other site 320372014209 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 320372014210 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 320372014211 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 320372014212 NADP binding site [chemical binding]; other site 320372014213 dimer interface [polypeptide binding]; other site 320372014214 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 320372014215 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 320372014216 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 320372014217 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372014218 D-galactonate transporter; Region: 2A0114; TIGR00893 320372014219 putative substrate translocation pore; other site 320372014220 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 320372014221 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 320372014222 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 320372014223 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 320372014224 catalytic residues [active] 320372014225 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 320372014226 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 320372014227 molybdopterin cofactor binding site; other site 320372014228 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 320372014229 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 320372014230 The MopB_CT_2 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. This CD is...; Region: MopB_CT_2; cd02783 320372014231 putative molybdopterin cofactor binding site; other site 320372014232 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 320372014233 4Fe-4S binding domain; Region: Fer4; pfam00037 320372014234 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 320372014235 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 320372014236 putative active site [active] 320372014237 putative metal binding site [ion binding]; other site 320372014238 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 320372014239 Transglycosylase; Region: Transgly; pfam00912 320372014240 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 320372014241 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 320372014242 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 320372014243 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 320372014244 catalytic residues [active] 320372014245 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372014246 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 320372014247 trimer interface [polypeptide binding]; other site 320372014248 eyelet of channel; other site 320372014249 amidase; Provisional; Region: PRK08137 320372014250 Amidase; Region: Amidase; cl11426 320372014251 putative acetyltransferase YhhY; Provisional; Region: PRK10140 320372014252 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 320372014253 Coenzyme A binding pocket [chemical binding]; other site 320372014254 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 320372014255 putative acetyltransferase YhhY; Provisional; Region: PRK10140 320372014256 Coenzyme A binding pocket [chemical binding]; other site 320372014257 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 320372014258 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 320372014259 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 320372014260 Transposase; Region: DDE_Tnp_ISL3; pfam01610 320372014261 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 320372014262 Transposase; Region: DDE_Tnp_ISL3; pfam01610 320372014263 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 320372014264 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 320372014265 Histidine kinase; Region: HisKA_3; pfam07730 320372014266 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 320372014267 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 320372014268 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372014269 active site 320372014270 phosphorylation site [posttranslational modification] 320372014271 intermolecular recognition site; other site 320372014272 dimerization interface [polypeptide binding]; other site 320372014273 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 320372014274 DNA binding residues [nucleotide binding] 320372014275 dimerization interface [polypeptide binding]; other site 320372014276 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 320372014277 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 320372014278 PAS domain; Region: PAS_9; pfam13426 320372014279 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 320372014280 putative active site [active] 320372014281 heme pocket [chemical binding]; other site 320372014282 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 320372014283 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 320372014284 metal binding site [ion binding]; metal-binding site 320372014285 active site 320372014286 I-site; other site 320372014287 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 320372014288 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 320372014289 Lipase (class 2); Region: Lipase_2; pfam01674 320372014290 PGAP1-like protein; Region: PGAP1; pfam07819 320372014291 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 320372014292 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 320372014293 Domain of unknown function (DUF4345); Region: DUF4345; pfam14248 320372014294 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 320372014295 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 320372014296 FtsX-like permease family; Region: FtsX; pfam02687 320372014297 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 320372014298 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 320372014299 Walker A/P-loop; other site 320372014300 ATP binding site [chemical binding]; other site 320372014301 Q-loop/lid; other site 320372014302 ABC transporter signature motif; other site 320372014303 Walker B; other site 320372014304 D-loop; other site 320372014305 H-loop/switch region; other site 320372014306 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 320372014307 Flavin-binding monooxygenase-like; Region: FMO-like; pfam00743 320372014308 Cytochrome P450; Region: p450; cl12078 320372014309 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 320372014310 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 320372014311 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 320372014312 putative NADP binding site [chemical binding]; other site 320372014313 active site 320372014314 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 320372014315 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 320372014316 putative NAD(P) binding site [chemical binding]; other site 320372014317 active site 320372014318 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 320372014319 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 320372014320 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 320372014321 active site 320372014322 active site 320372014323 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 320372014324 active site 320372014325 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 320372014326 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 320372014327 putative NADP binding site [chemical binding]; other site 320372014328 active site 320372014329 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 320372014330 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 320372014331 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 320372014332 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 320372014333 VacJ like lipoprotein; Region: VacJ; cl01073 320372014334 hypothetical protein; Provisional; Region: PRK07483 320372014335 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 320372014336 inhibitor-cofactor binding pocket; inhibition site 320372014337 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372014338 catalytic residue [active] 320372014339 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 320372014340 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 320372014341 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 320372014342 Walker A/P-loop; other site 320372014343 ATP binding site [chemical binding]; other site 320372014344 Q-loop/lid; other site 320372014345 ABC transporter signature motif; other site 320372014346 Walker B; other site 320372014347 D-loop; other site 320372014348 H-loop/switch region; other site 320372014349 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 320372014350 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372014351 dimer interface [polypeptide binding]; other site 320372014352 conserved gate region; other site 320372014353 putative PBP binding loops; other site 320372014354 ABC-ATPase subunit interface; other site 320372014355 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 320372014356 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 320372014357 substrate binding pocket [chemical binding]; other site 320372014358 membrane-bound complex binding site; other site 320372014359 hinge residues; other site 320372014360 hypothetical protein; Provisional; Region: PRK07077 320372014361 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 320372014362 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 320372014363 Active site cavity [active] 320372014364 catalytic acid [active] 320372014365 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 320372014366 active site lid residues [active] 320372014367 substrate binding pocket [chemical binding]; other site 320372014368 catalytic residues [active] 320372014369 substrate-Mg2+ binding site; other site 320372014370 aspartate-rich region 1; other site 320372014371 aspartate-rich region 2; other site 320372014372 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 320372014373 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 320372014374 PAS fold; Region: PAS_4; pfam08448 320372014375 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 320372014376 putative active site [active] 320372014377 heme pocket [chemical binding]; other site 320372014378 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 320372014379 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 320372014380 metal binding site [ion binding]; metal-binding site 320372014381 active site 320372014382 I-site; other site 320372014383 Response regulator receiver domain; Region: Response_reg; pfam00072 320372014384 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372014385 active site 320372014386 phosphorylation site [posttranslational modification] 320372014387 intermolecular recognition site; other site 320372014388 dimerization interface [polypeptide binding]; other site 320372014389 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 320372014390 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 320372014391 dimer interface [polypeptide binding]; other site 320372014392 phosphorylation site [posttranslational modification] 320372014393 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372014394 ATP binding site [chemical binding]; other site 320372014395 Mg2+ binding site [ion binding]; other site 320372014396 G-X-G motif; other site 320372014397 Response regulator receiver domain; Region: Response_reg; pfam00072 320372014398 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372014399 active site 320372014400 phosphorylation site [posttranslational modification] 320372014401 intermolecular recognition site; other site 320372014402 dimerization interface [polypeptide binding]; other site 320372014403 Predicted flavoprotein [General function prediction only]; Region: COG0431 320372014404 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 320372014405 RNA polymerase sigma factor; Provisional; Region: PRK12545 320372014406 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 320372014407 DNA binding residues [nucleotide binding] 320372014408 Putative zinc-finger; Region: zf-HC2; pfam13490 320372014409 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 320372014410 ArsC family; Region: ArsC; pfam03960 320372014411 catalytic residues [active] 320372014412 ParA-like protein; Provisional; Region: PHA02518 320372014413 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 320372014414 P-loop; other site 320372014415 Magnesium ion binding site [ion binding]; other site 320372014416 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 320372014417 ParB-like nuclease domain; Region: ParB; smart00470 320372014418 Initiator Replication protein; Region: Rep_3; pfam01051 320372014419 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 320372014420 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 320372014421 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 320372014422 active site 320372014423 Int/Topo IB signature motif; other site 320372014424 catalytic residues [active] 320372014425 DNA binding site [nucleotide binding] 320372014426 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 320372014427 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 320372014428 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 320372014429 non-specific DNA binding site [nucleotide binding]; other site 320372014430 salt bridge; other site 320372014431 sequence-specific DNA binding site [nucleotide binding]; other site 320372014432 Cupin domain; Region: Cupin_2; pfam07883 320372014433 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 320372014434 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 320372014435 substrate-cofactor binding pocket; other site 320372014436 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372014437 catalytic residue [active] 320372014438 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 320372014439 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 320372014440 NAD(P) binding site [chemical binding]; other site 320372014441 Uncharacterized conserved protein [Function unknown]; Region: COG2353 320372014442 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372014443 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372014444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 320372014445 SnoaL-like domain; Region: SnoaL_2; pfam12680 320372014446 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 320372014447 putative active site [active] 320372014448 Zn binding site [ion binding]; other site 320372014449 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 320372014450 tartrate dehydrogenase; Region: TTC; TIGR02089 320372014451 transcriptional activator TtdR; Provisional; Region: PRK09801 320372014452 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372014453 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 320372014454 putative effector binding pocket; other site 320372014455 putative dimerization interface [polypeptide binding]; other site 320372014456 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 320372014457 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 320372014458 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 320372014459 putative C-terminal domain interface [polypeptide binding]; other site 320372014460 putative GSH binding site (G-site) [chemical binding]; other site 320372014461 putative dimer interface [polypeptide binding]; other site 320372014462 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 320372014463 putative N-terminal domain interface [polypeptide binding]; other site 320372014464 putative dimer interface [polypeptide binding]; other site 320372014465 putative substrate binding pocket (H-site) [chemical binding]; other site 320372014466 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 320372014467 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 320372014468 nucleophile elbow; other site 320372014469 Patatin phospholipase; Region: DUF3734; pfam12536 320372014470 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 320372014471 classical (c) SDRs; Region: SDR_c; cd05233 320372014472 NAD(P) binding site [chemical binding]; other site 320372014473 active site 320372014474 acetoacetate decarboxylase; Provisional; Region: PRK02265 320372014475 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 320372014476 active site 320372014477 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 320372014478 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 320372014479 FAD binding pocket [chemical binding]; other site 320372014480 FAD binding motif [chemical binding]; other site 320372014481 phosphate binding motif [ion binding]; other site 320372014482 NAD binding pocket [chemical binding]; other site 320372014483 Predicted transcriptional regulators [Transcription]; Region: COG1695 320372014484 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 320372014485 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 320372014486 Cytochrome P450; Region: p450; cl12078 320372014487 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 320372014488 Protein of unknown function (DUF692); Region: DUF692; cl01263 320372014489 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 320372014490 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 320372014491 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 320372014492 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 320372014493 FeS/SAM binding site; other site 320372014494 Methyltransferase domain; Region: Methyltransf_31; pfam13847 320372014495 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 320372014496 S-adenosylmethionine binding site [chemical binding]; other site 320372014497 Lysine efflux permease [General function prediction only]; Region: COG1279 320372014498 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 320372014499 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372014500 The 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 320372014501 dimerization interface [polypeptide binding]; other site 320372014502 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 320372014503 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 320372014504 ligand binding site [chemical binding]; other site 320372014505 flexible hinge region; other site 320372014506 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 320372014507 putative switch regulator; other site 320372014508 non-specific DNA interactions [nucleotide binding]; other site 320372014509 DNA binding site [nucleotide binding] 320372014510 sequence specific DNA binding site [nucleotide binding]; other site 320372014511 putative cAMP binding site [chemical binding]; other site 320372014512 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 320372014513 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 320372014514 dimer interface [polypeptide binding]; other site 320372014515 NADP binding site [chemical binding]; other site 320372014516 catalytic residues [active] 320372014517 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 320372014518 Strictosidine synthase; Region: Str_synth; pfam03088 320372014519 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 320372014520 serine O-acetyltransferase; Region: cysE; TIGR01172 320372014521 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 320372014522 trimer interface [polypeptide binding]; other site 320372014523 active site 320372014524 substrate binding site [chemical binding]; other site 320372014525 CoA binding site [chemical binding]; other site 320372014526 short chain dehydrogenase; Provisional; Region: PRK09134 320372014527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372014528 NAD(P) binding site [chemical binding]; other site 320372014529 active site 320372014530 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 320372014531 GTP cyclohydrolase I; Provisional; Region: PLN03044 320372014532 active site 320372014533 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372014534 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372014535 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 320372014536 substrate binding pocket [chemical binding]; other site 320372014537 dimerization interface [polypeptide binding]; other site 320372014538 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 320372014539 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 320372014540 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 320372014541 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 320372014542 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 320372014543 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 320372014544 tetramer interface [polypeptide binding]; other site 320372014545 active site 320372014546 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 320372014547 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 320372014548 benzoate transport; Region: 2A0115; TIGR00895 320372014549 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372014550 putative substrate translocation pore; other site 320372014551 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372014552 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 320372014553 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 320372014554 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 320372014555 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 320372014556 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 320372014557 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 320372014558 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 320372014559 Chromate transporter; Region: Chromate_transp; pfam02417 320372014560 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 320372014561 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 320372014562 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 320372014563 RNA polymerase sigma factor; Provisional; Region: PRK11922 320372014564 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 320372014565 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 320372014566 DNA binding residues [nucleotide binding] 320372014567 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 320372014568 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 320372014569 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 320372014570 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372014571 Walker A/P-loop; other site 320372014572 ATP binding site [chemical binding]; other site 320372014573 Q-loop/lid; other site 320372014574 ABC transporter signature motif; other site 320372014575 Walker B; other site 320372014576 D-loop; other site 320372014577 H-loop/switch region; other site 320372014578 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372014579 Walker A/P-loop; other site 320372014580 ATP binding site [chemical binding]; other site 320372014581 Q-loop/lid; other site 320372014582 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 320372014583 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 320372014584 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 320372014585 H-NS histone family; Region: Histone_HNS; pfam00816 320372014586 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 320372014587 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 320372014588 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372014589 putative substrate translocation pore; other site 320372014590 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 320372014591 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 320372014592 dimer interface [polypeptide binding]; other site 320372014593 phosphorylation site [posttranslational modification] 320372014594 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372014595 ATP binding site [chemical binding]; other site 320372014596 Mg2+ binding site [ion binding]; other site 320372014597 G-X-G motif; other site 320372014598 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 320372014599 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372014600 active site 320372014601 phosphorylation site [posttranslational modification] 320372014602 intermolecular recognition site; other site 320372014603 dimerization interface [polypeptide binding]; other site 320372014604 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 320372014605 Walker A motif; other site 320372014606 ATP binding site [chemical binding]; other site 320372014607 Walker B motif; other site 320372014608 arginine finger; other site 320372014609 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 320372014610 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 320372014611 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372014612 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372014613 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 320372014614 Phosphoesterase family; Region: Phosphoesterase; pfam04185 320372014615 Domain of unknown function (DUF756); Region: DUF756; pfam05506 320372014616 Domain of unknown function (DUF756); Region: DUF756; pfam05506 320372014617 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 320372014618 Coenzyme A binding pocket [chemical binding]; other site 320372014619 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372014620 dimer interface [polypeptide binding]; other site 320372014621 conserved gate region; other site 320372014622 putative PBP binding loops; other site 320372014623 ABC-ATPase subunit interface; other site 320372014624 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 320372014625 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372014626 dimer interface [polypeptide binding]; other site 320372014627 conserved gate region; other site 320372014628 putative PBP binding loops; other site 320372014629 ABC-ATPase subunit interface; other site 320372014630 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 320372014631 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 320372014632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 320372014633 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 320372014634 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 320372014635 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 320372014636 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 320372014637 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 320372014638 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 320372014639 Uncharacterized conserved protein [Function unknown]; Region: COG4104 320372014640 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 320372014641 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 320372014642 catalytic residues [active] 320372014643 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 320372014644 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 320372014645 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 320372014646 Subunit I/III interface [polypeptide binding]; other site 320372014647 D-pathway; other site 320372014648 Subunit I/VIIc interface [polypeptide binding]; other site 320372014649 Subunit I/IV interface [polypeptide binding]; other site 320372014650 Subunit I/II interface [polypeptide binding]; other site 320372014651 Low-spin heme (heme a) binding site [chemical binding]; other site 320372014652 Subunit I/VIIa interface [polypeptide binding]; other site 320372014653 Subunit I/VIa interface [polypeptide binding]; other site 320372014654 Dimer interface; other site 320372014655 Putative water exit pathway; other site 320372014656 Binuclear center (heme a3/CuB) [ion binding]; other site 320372014657 K-pathway; other site 320372014658 Subunit I/Vb interface [polypeptide binding]; other site 320372014659 Putative proton exit pathway; other site 320372014660 Subunit I/VIb interface; other site 320372014661 Subunit I/VIc interface [polypeptide binding]; other site 320372014662 Electron transfer pathway; other site 320372014663 Subunit I/VIIIb interface [polypeptide binding]; other site 320372014664 Subunit I/VIIb interface [polypeptide binding]; other site 320372014665 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 320372014666 trimer interface [polypeptide binding]; other site 320372014667 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 320372014668 trimer interface [polypeptide binding]; other site 320372014669 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 320372014670 trimer interface [polypeptide binding]; other site 320372014671 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 320372014672 trimer interface [polypeptide binding]; other site 320372014673 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 320372014674 trimer interface [polypeptide binding]; other site 320372014675 YadA-like C-terminal region; Region: YadA; pfam03895 320372014676 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 320372014677 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 320372014678 YfaZ precursor; Region: YfaZ; pfam07437 320372014679 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 320372014680 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 320372014681 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 320372014682 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 320372014683 PapC N-terminal domain; Region: PapC_N; pfam13954 320372014684 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 320372014685 PapC C-terminal domain; Region: PapC_C; pfam13953 320372014686 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 320372014687 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 320372014688 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 320372014689 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 320372014690 ligand binding site [chemical binding]; other site 320372014691 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 320372014692 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 320372014693 Protein of unknown function (DUF877); Region: DUF877; pfam05943 320372014694 Protein of unknown function (DUF796); Region: DUF796; pfam05638 320372014695 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 320372014696 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 320372014697 hypothetical protein; Provisional; Region: PRK08126 320372014698 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 320372014699 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 320372014700 ligand binding site [chemical binding]; other site 320372014701 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 320372014702 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 320372014703 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 320372014704 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 320372014705 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 320372014706 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 320372014707 PAAR motif; Region: PAAR_motif; pfam05488 320372014708 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 320372014709 RHS Repeat; Region: RHS_repeat; cl11982 320372014710 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 320372014711 RHS Repeat; Region: RHS_repeat; cl11982 320372014712 RHS protein; Region: RHS; pfam03527 320372014713 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 320372014714 Glycosyltransferase (GlcNAc); Region: GlcNAc; pfam11397 320372014715 Fimbrial protein; Region: Fimbrial; pfam00419 320372014716 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 320372014717 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 320372014718 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 320372014719 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 320372014720 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 320372014721 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 320372014722 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 320372014723 ImpE protein; Region: ImpE; pfam07024 320372014724 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 320372014725 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 320372014726 Walker A motif; other site 320372014727 ATP binding site [chemical binding]; other site 320372014728 Walker B motif; other site 320372014729 arginine finger; other site 320372014730 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 320372014731 Walker A motif; other site 320372014732 ATP binding site [chemical binding]; other site 320372014733 Walker B motif; other site 320372014734 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 320372014735 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 320372014736 dimer interface [polypeptide binding]; other site 320372014737 phosphorylation site [posttranslational modification] 320372014738 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372014739 ATP binding site [chemical binding]; other site 320372014740 Mg2+ binding site [ion binding]; other site 320372014741 G-X-G motif; other site 320372014742 Response regulator receiver domain; Region: Response_reg; pfam00072 320372014743 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372014744 active site 320372014745 phosphorylation site [posttranslational modification] 320372014746 intermolecular recognition site; other site 320372014747 dimerization interface [polypeptide binding]; other site 320372014748 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 320372014749 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372014750 active site 320372014751 phosphorylation site [posttranslational modification] 320372014752 intermolecular recognition site; other site 320372014753 dimerization interface [polypeptide binding]; other site 320372014754 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 320372014755 DNA binding residues [nucleotide binding] 320372014756 dimerization interface [polypeptide binding]; other site 320372014757 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 320372014758 PapC N-terminal domain; Region: PapC_N; pfam13954 320372014759 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 320372014760 PapC C-terminal domain; Region: PapC_C; pfam13953 320372014761 putative fimbrial chaperone protein; Provisional; Region: PRK09918 320372014762 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 320372014763 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 320372014764 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 320372014765 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372014766 active site 320372014767 phosphorylation site [posttranslational modification] 320372014768 intermolecular recognition site; other site 320372014769 dimerization interface [polypeptide binding]; other site 320372014770 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 320372014771 DNA binding residues [nucleotide binding] 320372014772 dimerization interface [polypeptide binding]; other site 320372014773 H-NS histone family; Region: Histone_HNS; pfam00816 320372014774 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 320372014775 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 320372014776 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372014777 putative substrate translocation pore; other site 320372014778 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 320372014779 pyruvate kinase; Provisional; Region: PRK06247 320372014780 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 320372014781 domain interfaces; other site 320372014782 active site 320372014783 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 320372014784 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 320372014785 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 320372014786 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 320372014787 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372014788 acyl-activating enzyme (AAE) consensus motif; other site 320372014789 AMP binding site [chemical binding]; other site 320372014790 active site 320372014791 CoA binding site [chemical binding]; other site 320372014792 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372014793 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 320372014794 SnoaL-like domain; Region: SnoaL_2; pfam12680 320372014795 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 320372014796 extended (e) SDRs; Region: SDR_e; cd08946 320372014797 NAD(P) binding site [chemical binding]; other site 320372014798 active site 320372014799 substrate binding site [chemical binding]; other site 320372014800 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 320372014801 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 320372014802 S-adenosylmethionine binding site [chemical binding]; other site 320372014803 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372014804 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 320372014805 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 320372014806 substrate binding pocket [chemical binding]; other site 320372014807 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 320372014808 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 320372014809 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 320372014810 metal binding site [ion binding]; metal-binding site 320372014811 active site 320372014812 I-site; other site 320372014813 mercuric reductase; Validated; Region: PRK06370 320372014814 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 320372014815 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 320372014816 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 320372014817 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 320372014818 putative ligand binding site [chemical binding]; other site 320372014819 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 320372014820 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 320372014821 TM-ABC transporter signature motif; other site 320372014822 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 320372014823 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 320372014824 Walker A/P-loop; other site 320372014825 ATP binding site [chemical binding]; other site 320372014826 Q-loop/lid; other site 320372014827 ABC transporter signature motif; other site 320372014828 Walker B; other site 320372014829 D-loop; other site 320372014830 H-loop/switch region; other site 320372014831 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 320372014832 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 320372014833 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 320372014834 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 320372014835 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 320372014836 Domain interface; other site 320372014837 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 320372014838 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 320372014839 Alpha-amylase, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. This domain is found in several bacterial and fungal alpha-amylases including the maltopentaose-forming amylases (G5-amylases). Most alpha-amylases have, in addition to the...; Region: CBM20_alpha_amylase; cd05808 320372014840 starch-binding site 2 [chemical binding]; other site 320372014841 starch-binding site 1 [chemical binding]; other site 320372014842 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 320372014843 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 320372014844 ATP binding site [chemical binding]; other site 320372014845 Mg++ binding site [ion binding]; other site 320372014846 motif III; other site 320372014847 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 320372014848 nucleotide binding region [chemical binding]; other site 320372014849 ATP-binding site [chemical binding]; other site 320372014850 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 320372014851 putative RNA binding site [nucleotide binding]; other site 320372014852 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 320372014853 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372014854 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372014855 metabolite-proton symporter; Region: 2A0106; TIGR00883 320372014856 putative substrate translocation pore; other site 320372014857 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 320372014858 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 320372014859 metal binding site [ion binding]; metal-binding site 320372014860 putative dimer interface [polypeptide binding]; other site 320372014861 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 320372014862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372014863 The 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 320372014864 dimerization interface [polypeptide binding]; other site 320372014865 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 320372014866 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 320372014867 putative di-iron ligands [ion binding]; other site 320372014868 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 320372014869 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 320372014870 substrate binding pocket [chemical binding]; other site 320372014871 membrane-bound complex binding site; other site 320372014872 hinge residues; other site 320372014873 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 320372014874 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 320372014875 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372014876 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372014877 The 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 320372014878 dimerization interface [polypeptide binding]; other site 320372014879 short chain dehydrogenase; Provisional; Region: PRK07023 320372014880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372014881 NAD(P) binding site [chemical binding]; other site 320372014882 active site 320372014883 SnoaL-like domain; Region: SnoaL_2; pfam12680 320372014884 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 320372014885 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 320372014886 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 320372014887 Pyoverdine/dityrosine biosynthesis protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: DIT1; COG3207 320372014888 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 320372014889 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 320372014890 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; cd00250 320372014891 substrate binding pocket [chemical binding]; other site 320372014892 active site 320372014893 iron coordination sites [ion binding]; other site 320372014894 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 320372014895 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 320372014896 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 320372014897 active site 320372014898 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 320372014899 dimer interface [polypeptide binding]; other site 320372014900 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 320372014901 Ligand Binding Site [chemical binding]; other site 320372014902 Molecular Tunnel; other site 320372014903 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 320372014904 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 320372014905 NADP binding site [chemical binding]; other site 320372014906 dimer interface [polypeptide binding]; other site 320372014907 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 320372014908 putative active site [active] 320372014909 putative metal binding site [ion binding]; other site 320372014910 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372014911 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372014912 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 320372014913 putative effector binding pocket; other site 320372014914 dimerization interface [polypeptide binding]; other site 320372014915 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 320372014916 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 320372014917 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 320372014918 hypothetical protein; Provisional; Region: PRK08126 320372014919 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 320372014920 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 320372014921 ligand binding site [chemical binding]; other site 320372014922 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 320372014923 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 320372014924 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 320372014925 Protein of unknown function (DUF796); Region: DUF796; pfam05638 320372014926 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 320372014927 Protein of unknown function (DUF877); Region: DUF877; pfam05943 320372014928 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 320372014929 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 320372014930 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 320372014931 Walker A motif; other site 320372014932 ATP binding site [chemical binding]; other site 320372014933 Walker B motif; other site 320372014934 arginine finger; other site 320372014935 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 320372014936 Walker A motif; other site 320372014937 ATP binding site [chemical binding]; other site 320372014938 Walker B motif; other site 320372014939 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 320372014940 ImpE protein; Region: ImpE; pfam07024 320372014941 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 320372014942 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 320372014943 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 320372014944 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 320372014945 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 320372014946 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 320372014947 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 320372014948 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 320372014949 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 320372014950 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 320372014951 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 320372014952 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 320372014953 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 320372014954 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 320372014955 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 320372014956 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 320372014957 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 320372014958 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 320372014959 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 320372014960 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 320372014961 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 320372014962 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 320372014963 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 320372014964 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372014965 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372014966 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 320372014967 putative substrate binding pocket [chemical binding]; other site 320372014968 putative dimerization interface [polypeptide binding]; other site 320372014969 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 320372014970 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 320372014971 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 320372014972 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372014973 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 320372014974 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 320372014975 homodimer interface [polypeptide binding]; other site 320372014976 substrate-cofactor binding pocket; other site 320372014977 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372014978 catalytic residue [active] 320372014979 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 320372014980 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 320372014981 dimer interface [polypeptide binding]; other site 320372014982 putative metal binding site [ion binding]; other site 320372014983 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 320372014984 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 320372014985 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 320372014986 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 320372014987 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional; Region: PRK12833 320372014988 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 320372014989 ATP-grasp domain; Region: ATP-grasp_4; cl17255 320372014990 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 320372014991 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 320372014992 carboxyltransferase (CT) interaction site; other site 320372014993 biotinylation site [posttranslational modification]; other site 320372014994 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_2; cd11664 320372014995 putative active site [active] 320372014996 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372014997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372014998 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 320372014999 putative substrate binding pocket [chemical binding]; other site 320372015000 dimerization interface [polypeptide binding]; other site 320372015001 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 320372015002 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 320372015003 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 320372015004 active site 320372015005 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 320372015006 TAP-like protein; Region: Abhydrolase_4; pfam08386 320372015007 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 320372015008 S-adenosylmethionine binding site [chemical binding]; other site 320372015009 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 320372015010 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 320372015011 dimerization interface [polypeptide binding]; other site 320372015012 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372015013 dimer interface [polypeptide binding]; other site 320372015014 putative CheW interface [polypeptide binding]; other site 320372015015 Propionate catabolism activator; Region: PrpR_N; pfam06506 320372015016 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 320372015017 putative active site [active] 320372015018 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 320372015019 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 320372015020 Walker A motif; other site 320372015021 ATP binding site [chemical binding]; other site 320372015022 Walker B motif; other site 320372015023 arginine finger; other site 320372015024 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 320372015025 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 320372015026 tetramer interface [polypeptide binding]; other site 320372015027 active site 320372015028 Mg2+/Mn2+ binding site [ion binding]; other site 320372015029 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 320372015030 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 320372015031 dimer interface [polypeptide binding]; other site 320372015032 active site 320372015033 citrylCoA binding site [chemical binding]; other site 320372015034 oxalacetate/citrate binding site [chemical binding]; other site 320372015035 coenzyme A binding site [chemical binding]; other site 320372015036 catalytic triad [active] 320372015037 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 320372015038 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 320372015039 substrate binding site [chemical binding]; other site 320372015040 ligand binding site [chemical binding]; other site 320372015041 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 320372015042 substrate binding site [chemical binding]; other site 320372015043 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 320372015044 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 320372015045 CoenzymeA binding site [chemical binding]; other site 320372015046 subunit interaction site [polypeptide binding]; other site 320372015047 PHB binding site; other site 320372015048 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 320372015049 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 320372015050 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 320372015051 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 320372015052 Y_X(10)_GDL-associated radical SAM protein; Region: rad_SAM_trio; TIGR03913 320372015053 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 320372015054 FeS/SAM binding site; other site 320372015055 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 320372015056 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 320372015057 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 320372015058 dimer interface [polypeptide binding]; other site 320372015059 ligand binding site [chemical binding]; other site 320372015060 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372015061 dimer interface [polypeptide binding]; other site 320372015062 putative CheW interface [polypeptide binding]; other site 320372015063 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372015064 Major Facilitator Superfamily; Region: MFS_1; pfam07690 320372015065 putative substrate translocation pore; other site 320372015066 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372015067 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 320372015068 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372015069 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 320372015070 dimerization interface [polypeptide binding]; other site 320372015071 substrate binding pocket [chemical binding]; other site 320372015072 dimerization interface [polypeptide binding]; other site 320372015073 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 320372015074 putative active cleft [active] 320372015075 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 320372015076 MgtC family; Region: MgtC; pfam02308 320372015077 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 320372015078 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 320372015079 Coenzyme A binding pocket [chemical binding]; other site 320372015080 Heavy-metal-associated domain; Region: HMA; pfam00403 320372015081 metal-binding site [ion binding] 320372015082 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 320372015083 metal-binding site [ion binding] 320372015084 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 320372015085 metal-binding site [ion binding] 320372015086 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 320372015087 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 320372015088 metal-binding site [ion binding] 320372015089 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 320372015090 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 320372015091 Uncharacterized conserved protein [Function unknown]; Region: COG5361 320372015092 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 320372015093 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 320372015094 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 320372015095 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 320372015096 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 320372015097 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 320372015098 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 320372015099 Sulfatase; Region: Sulfatase; cl17466 320372015100 Sulfatase; Region: Sulfatase; cl17466 320372015101 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 320372015102 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 320372015103 active site 320372015104 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 320372015105 active site lid residues [active] 320372015106 substrate binding pocket [chemical binding]; other site 320372015107 catalytic residues [active] 320372015108 substrate-Mg2+ binding site; other site 320372015109 aspartate-rich region 1; other site 320372015110 aspartate-rich region 2; other site 320372015111 The 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 320372015112 dimerization interface [polypeptide binding]; other site 320372015113 The 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 320372015114 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 320372015115 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 320372015116 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 320372015117 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 320372015118 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 320372015119 tetramer interface [polypeptide binding]; other site 320372015120 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372015121 catalytic residue [active] 320372015122 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 320372015123 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372015124 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 320372015125 putative dimerization interface [polypeptide binding]; other site 320372015126 Transglycosylase; Region: Transgly; pfam00912 320372015127 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 320372015128 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 320372015129 Predicted membrane protein [Function unknown]; Region: COG2860 320372015130 UPF0126 domain; Region: UPF0126; pfam03458 320372015131 UPF0126 domain; Region: UPF0126; pfam03458 320372015132 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13547 320372015133 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 320372015134 Walker A/P-loop; other site 320372015135 ATP binding site [chemical binding]; other site 320372015136 Q-loop/lid; other site 320372015137 ABC transporter signature motif; other site 320372015138 Walker B; other site 320372015139 D-loop; other site 320372015140 H-loop/switch region; other site 320372015141 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 320372015142 putative PBP binding regions; other site 320372015143 ABC-ATPase subunit interface; other site 320372015144 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 320372015145 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 320372015146 intersubunit interface [polypeptide binding]; other site 320372015147 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 320372015148 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 320372015149 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 320372015150 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 320372015151 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 320372015152 N-terminal plug; other site 320372015153 ligand-binding site [chemical binding]; other site 320372015154 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 320372015155 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372015156 The 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 320372015157 dimerization interface [polypeptide binding]; other site 320372015158 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372015159 dimer interface [polypeptide binding]; other site 320372015160 conserved gate region; other site 320372015161 putative PBP binding loops; other site 320372015162 ABC-ATPase subunit interface; other site 320372015163 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 320372015164 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 320372015165 Walker A/P-loop; other site 320372015166 ATP binding site [chemical binding]; other site 320372015167 Q-loop/lid; other site 320372015168 ABC transporter signature motif; other site 320372015169 Walker B; other site 320372015170 D-loop; other site 320372015171 H-loop/switch region; other site 320372015172 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 320372015173 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 320372015174 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372015175 dimer interface [polypeptide binding]; other site 320372015176 conserved gate region; other site 320372015177 putative PBP binding loops; other site 320372015178 ABC-ATPase subunit interface; other site 320372015179 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 320372015180 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372015181 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 320372015182 trimer interface [polypeptide binding]; other site 320372015183 eyelet of channel; other site 320372015184 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 320372015185 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 320372015186 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 320372015187 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 320372015188 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 320372015189 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 320372015190 TM-ABC transporter signature motif; other site 320372015191 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 320372015192 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 320372015193 putative ligand binding site [chemical binding]; other site 320372015194 short chain dehydrogenase; Provisional; Region: PRK06841 320372015195 classical (c) SDRs; Region: SDR_c; cd05233 320372015196 NAD(P) binding site [chemical binding]; other site 320372015197 active site 320372015198 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 320372015199 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 320372015200 putative NAD(P) binding site [chemical binding]; other site 320372015201 catalytic Zn binding site [ion binding]; other site 320372015202 structural Zn binding site [ion binding]; other site 320372015203 DAK2 domain; Region: Dak2; pfam02734 320372015204 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 320372015205 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 320372015206 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 320372015207 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372015208 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 320372015209 trimer interface [polypeptide binding]; other site 320372015210 eyelet of channel; other site 320372015211 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 320372015212 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 320372015213 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 320372015214 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 320372015215 active site 320372015216 Zn binding site [ion binding]; other site 320372015217 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 320372015218 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 320372015219 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 320372015220 substrate binding pocket [chemical binding]; other site 320372015221 membrane-bound complex binding site; other site 320372015222 hinge residues; other site 320372015223 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 320372015224 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 320372015225 metal binding site [ion binding]; metal-binding site 320372015226 putative dimer interface [polypeptide binding]; other site 320372015227 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 320372015228 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372015229 The 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 320372015230 dimerization interface [polypeptide binding]; other site 320372015231 metabolite-proton symporter; Region: 2A0106; TIGR00883 320372015232 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372015233 putative substrate translocation pore; other site 320372015234 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 320372015235 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372015236 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 320372015237 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 320372015238 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 320372015239 Bacterial transcriptional regulator; Region: IclR; pfam01614 320372015240 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 320372015241 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 320372015242 dimer interface [polypeptide binding]; other site 320372015243 active site 320372015244 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 320372015245 PAS domain; Region: PAS_9; pfam13426 320372015246 putative active site [active] 320372015247 heme pocket [chemical binding]; other site 320372015248 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372015249 dimer interface [polypeptide binding]; other site 320372015250 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 320372015251 putative CheW interface [polypeptide binding]; other site 320372015252 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 320372015253 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 320372015254 S-adenosylmethionine binding site [chemical binding]; other site 320372015255 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 320372015256 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 320372015257 hydrophobic ligand binding site; other site 320372015258 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 320372015259 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 320372015260 iron-sulfur cluster [ion binding]; other site 320372015261 [2Fe-2S] cluster binding site [ion binding]; other site 320372015262 succinic semialdehyde dehydrogenase; Region: PLN02278 320372015263 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 320372015264 tetramerization interface [polypeptide binding]; other site 320372015265 NAD(P) binding site [chemical binding]; other site 320372015266 catalytic residues [active] 320372015267 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 320372015268 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 320372015269 inhibitor-cofactor binding pocket; inhibition site 320372015270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372015271 catalytic residue [active] 320372015272 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372015273 DNA-binding site [nucleotide binding]; DNA binding site 320372015274 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 320372015275 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 320372015276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372015277 homodimer interface [polypeptide binding]; other site 320372015278 catalytic residue [active] 320372015279 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 320372015280 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 320372015281 Transcriptional regulator [Transcription]; Region: IclR; COG1414 320372015282 Bacterial transcriptional regulator; Region: IclR; pfam01614 320372015283 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 320372015284 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 320372015285 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 320372015286 EamA-like transporter family; Region: EamA; cl17759 320372015287 selenophosphate synthetase; Provisional; Region: PRK00943 320372015288 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 320372015289 dimerization interface [polypeptide binding]; other site 320372015290 putative ATP binding site [chemical binding]; other site 320372015291 Purine nucleoside permease (NUP); Region: NUP; pfam06516 320372015292 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 320372015293 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372015294 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372015295 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 320372015296 putative effector binding pocket; other site 320372015297 putative dimerization interface [polypeptide binding]; other site 320372015298 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 320372015299 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 320372015300 substrate binding pocket [chemical binding]; other site 320372015301 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 320372015302 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372015303 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372015304 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 320372015305 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 320372015306 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 320372015307 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 320372015308 Transcriptional regulators [Transcription]; Region: GntR; COG1802 320372015309 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372015310 DNA-binding site [nucleotide binding]; DNA binding site 320372015311 FCD domain; Region: FCD; pfam07729 320372015312 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 320372015313 Coenzyme A binding pocket [chemical binding]; other site 320372015314 Membrane transport protein; Region: Mem_trans; cl09117 320372015315 acyl-CoA synthetase; Validated; Region: PRK05850 320372015316 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 320372015317 acyl-activating enzyme (AAE) consensus motif; other site 320372015318 active site 320372015319 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 320372015320 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 320372015321 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 320372015322 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372015323 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 320372015324 acyl-activating enzyme (AAE) consensus motif; other site 320372015325 AMP binding site [chemical binding]; other site 320372015326 active site 320372015327 CoA binding site [chemical binding]; other site 320372015328 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 320372015329 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 320372015330 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 320372015331 catalytic residue [active] 320372015332 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 320372015333 Ketol-acid reductoisomerase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvC; COG0059 320372015334 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 320372015335 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 320372015336 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 320372015337 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 320372015338 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 320372015339 active site 320372015340 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 320372015341 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 320372015342 putative NADP binding site [chemical binding]; other site 320372015343 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 320372015344 active site 320372015345 Methyltransferase domain; Region: Methyltransf_12; pfam08242 320372015346 Methyltransferase domain; Region: Methyltransf_23; pfam13489 320372015347 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372015348 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 320372015349 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 320372015350 active site 320372015351 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372015352 Condensation domain; Region: Condensation; pfam00668 320372015353 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372015354 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 320372015355 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372015356 thioester reductase domain; Region: Thioester-redct; TIGR01746 320372015357 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 320372015358 putative NAD(P) binding site [chemical binding]; other site 320372015359 active site 320372015360 putative substrate binding site [chemical binding]; other site 320372015361 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 320372015362 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 320372015363 tetrameric interface [polypeptide binding]; other site 320372015364 NAD binding site [chemical binding]; other site 320372015365 catalytic residues [active] 320372015366 substrate binding site [chemical binding]; other site 320372015367 hypothetical protein; Provisional; Region: PRK07036 320372015368 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 320372015369 inhibitor-cofactor binding pocket; inhibition site 320372015370 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372015371 catalytic residue [active] 320372015372 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 320372015373 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 320372015374 Cysteine-rich motif following a subset of SET domains; Region: PostSET; smart00508 320372015375 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 320372015376 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 320372015377 AMP-binding enzyme; Region: AMP-binding; pfam00501 320372015378 acyl-activating enzyme (AAE) consensus motif; other site 320372015379 AMP binding site [chemical binding]; other site 320372015380 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372015381 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 320372015382 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 320372015383 active site 320372015384 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 320372015385 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 320372015386 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 320372015387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372015388 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 320372015389 NAD(P) binding site [chemical binding]; other site 320372015390 active site 320372015391 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372015392 Autoinducer binding domain; Region: Autoind_bind; pfam03472 320372015393 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 320372015394 DNA binding residues [nucleotide binding] 320372015395 dimerization interface [polypeptide binding]; other site 320372015396 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 320372015397 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 320372015398 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 320372015399 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 320372015400 active site 320372015401 non-prolyl cis peptide bond; other site 320372015402 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 320372015403 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 320372015404 Walker A/P-loop; other site 320372015405 ATP binding site [chemical binding]; other site 320372015406 Q-loop/lid; other site 320372015407 ABC transporter signature motif; other site 320372015408 Walker B; other site 320372015409 D-loop; other site 320372015410 H-loop/switch region; other site 320372015411 NIL domain; Region: NIL; pfam09383 320372015412 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372015413 dimer interface [polypeptide binding]; other site 320372015414 conserved gate region; other site 320372015415 ABC-ATPase subunit interface; other site 320372015416 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 320372015417 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 320372015418 Flavin binding site [chemical binding]; other site 320372015419 transcriptional regulator NanR; Provisional; Region: PRK03837 320372015420 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372015421 DNA-binding site [nucleotide binding]; DNA binding site 320372015422 FCD domain; Region: FCD; pfam07729 320372015423 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 320372015424 Cysteine-rich domain; Region: CCG; pfam02754 320372015425 Cysteine-rich domain; Region: CCG; pfam02754 320372015426 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 320372015427 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 320372015428 4Fe-4S binding domain; Region: Fer4; pfam00037 320372015429 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 320372015430 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 320372015431 glycolate transporter; Provisional; Region: PRK09695 320372015432 L-lactate permease; Region: Lactate_perm; cl00701 320372015433 Predicted membrane protein [Function unknown]; Region: COG2259 320372015434 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372015435 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372015436 metabolite-proton symporter; Region: 2A0106; TIGR00883 320372015437 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372015438 putative substrate translocation pore; other site 320372015439 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 320372015440 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 320372015441 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 320372015442 dimer interface [polypeptide binding]; other site 320372015443 NADP binding site [chemical binding]; other site 320372015444 catalytic residues [active] 320372015445 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 320372015446 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 320372015447 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 320372015448 inhibitor site; inhibition site 320372015449 active site 320372015450 dimer interface [polypeptide binding]; other site 320372015451 catalytic residue [active] 320372015452 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 320372015453 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 320372015454 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 320372015455 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 320372015456 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 320372015457 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 320372015458 PAS fold; Region: PAS_4; pfam08448 320372015459 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 320372015460 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372015461 Transposase; Region: DEDD_Tnp_IS110; pfam01548 320372015462 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 320372015463 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 320372015464 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 320372015465 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 320372015466 dimer interface [polypeptide binding]; other site 320372015467 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 320372015468 active site 320372015469 Fe binding site [ion binding]; other site 320372015470 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 320372015471 Dehydroquinase class II; Region: DHquinase_II; pfam01220 320372015472 active site 320372015473 trimer interface [polypeptide binding]; other site 320372015474 dimer interface [polypeptide binding]; other site 320372015475 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 320372015476 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 320372015477 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 320372015478 shikimate binding site; other site 320372015479 NAD(P) binding site [chemical binding]; other site 320372015480 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372015481 D-galactonate transporter; Region: 2A0114; TIGR00893 320372015482 putative substrate translocation pore; other site 320372015483 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372015484 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 320372015485 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372015486 catalytic residue [active] 320372015487 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein; Region: PhnS; TIGR03227 320372015488 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 320372015489 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 320372015490 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372015491 Walker A/P-loop; other site 320372015492 ATP binding site [chemical binding]; other site 320372015493 Q-loop/lid; other site 320372015494 ABC transporter signature motif; other site 320372015495 Walker B; other site 320372015496 D-loop; other site 320372015497 H-loop/switch region; other site 320372015498 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 320372015499 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372015500 dimer interface [polypeptide binding]; other site 320372015501 conserved gate region; other site 320372015502 putative PBP binding loops; other site 320372015503 ABC-ATPase subunit interface; other site 320372015504 2-aminoethylphosphonate ABC transport system, membrane component PhnV; Region: PhnV; TIGR03255 320372015505 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 320372015506 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 320372015507 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 320372015508 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 320372015509 NAD(P) binding site [chemical binding]; other site 320372015510 catalytic residues [active] 320372015511 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 320372015512 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 320372015513 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 320372015514 DNA binding residues [nucleotide binding] 320372015515 dimer interface [polypeptide binding]; other site 320372015516 copper binding site [ion binding]; other site 320372015517 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 320372015518 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 320372015519 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 320372015520 active site 320372015521 catalytic tetrad [active] 320372015522 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 320372015523 classical (c) SDRs; Region: SDR_c; cd05233 320372015524 NAD(P) binding site [chemical binding]; other site 320372015525 active site 320372015526 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 320372015527 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 320372015528 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372015529 homodimer interface [polypeptide binding]; other site 320372015530 catalytic residue [active] 320372015531 excinuclease ABC subunit B; Provisional; Region: PRK05298 320372015532 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 320372015533 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 320372015534 ATP-binding site [chemical binding]; other site 320372015535 ATP binding site [chemical binding]; other site 320372015536 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 320372015537 nucleotide binding region [chemical binding]; other site 320372015538 ATP-binding site [chemical binding]; other site 320372015539 Ultra-violet resistance protein B; Region: UvrB; pfam12344 320372015540 UvrB/uvrC motif; Region: UVR; pfam02151 320372015541 Fe2+ transport protein; Region: Iron_transport; pfam10634 320372015542 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 320372015543 Iron permease FTR1 family; Region: FTR1; cl00475 320372015544 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 320372015545 4Fe-4S binding domain; Region: Fer4_5; pfam12801 320372015546 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 320372015547 Hemin uptake protein hemP; Region: hemP; pfam10636 320372015548 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 320372015549 putative hydrophobic ligand binding site [chemical binding]; other site 320372015550 Pirin-related protein [General function prediction only]; Region: COG1741 320372015551 Pirin; Region: Pirin; pfam02678 320372015552 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 320372015553 LysR family transcriptional regulator; Provisional; Region: PRK14997 320372015554 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372015555 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 320372015556 putative effector binding pocket; other site 320372015557 putative dimerization interface [polypeptide binding]; other site 320372015558 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 320372015559 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 320372015560 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 320372015561 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 320372015562 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 320372015563 glutamate racemase; Provisional; Region: PRK00865 320372015564 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 320372015565 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 320372015566 heme binding site [chemical binding]; other site 320372015567 ferroxidase pore; other site 320372015568 ferroxidase diiron center [ion binding]; other site 320372015569 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 320372015570 Fumarase C-terminus; Region: Fumerase_C; pfam05683 320372015571 hypothetical protein; Provisional; Region: PRK05208 320372015572 EamA-like transporter family; Region: EamA; pfam00892 320372015573 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 320372015574 EamA-like transporter family; Region: EamA; pfam00892 320372015575 acetyl-CoA synthetase; Provisional; Region: PRK00174 320372015576 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 320372015577 active site 320372015578 CoA binding site [chemical binding]; other site 320372015579 acyl-activating enzyme (AAE) consensus motif; other site 320372015580 AMP binding site [chemical binding]; other site 320372015581 acetate binding site [chemical binding]; other site 320372015582 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 320372015583 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 320372015584 Integrase core domain; Region: rve; pfam00665 320372015585 Integrase core domain; Region: rve_3; pfam13683 320372015586 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 320372015587 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 320372015588 SPFH domain / Band 7 family; Region: Band_7; pfam01145 320372015589 Integrase core domain; Region: rve; pfam00665 320372015590 Integrase core domain; Region: rve_3; pfam13683 320372015591 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 320372015592 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 320372015593 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 320372015594 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 320372015595 active site 320372015596 metal binding site [ion binding]; metal-binding site 320372015597 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 320372015598 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 320372015599 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 320372015600 putative active site [active] 320372015601 catalytic site [active] 320372015602 putative metal binding site [ion binding]; other site 320372015603 Integrase core domain; Region: rve; pfam00665 320372015604 Integrase core domain; Region: rve_3; pfam13683 320372015605 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 320372015606 Bacterial Ig-like domain; Region: Big_5; pfam13205 320372015607 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 320372015608 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 320372015609 PYR/PP interface [polypeptide binding]; other site 320372015610 dimer interface [polypeptide binding]; other site 320372015611 TPP binding site [chemical binding]; other site 320372015612 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 320372015613 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 320372015614 TPP-binding site [chemical binding]; other site 320372015615 dimer interface [polypeptide binding]; other site 320372015616 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 320372015617 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 320372015618 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 320372015619 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 320372015620 SLBB domain; Region: SLBB; pfam10531 320372015621 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 320372015622 Chain length determinant protein; Region: Wzz; pfam02706 320372015623 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 320372015624 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 320372015625 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 320372015626 substrate binding site; other site 320372015627 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 320372015628 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 320372015629 NAD binding site [chemical binding]; other site 320372015630 homotetramer interface [polypeptide binding]; other site 320372015631 homodimer interface [polypeptide binding]; other site 320372015632 substrate binding site [chemical binding]; other site 320372015633 active site 320372015634 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 320372015635 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 320372015636 inhibitor-cofactor binding pocket; inhibition site 320372015637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372015638 catalytic residue [active] 320372015639 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 320372015640 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 320372015641 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 320372015642 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 320372015643 inhibitor-cofactor binding pocket; inhibition site 320372015644 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372015645 catalytic residue [active] 320372015646 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 320372015647 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 320372015648 active site 320372015649 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 320372015650 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 320372015651 putative active site [active] 320372015652 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 320372015653 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 320372015654 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 320372015655 putative active site [active] 320372015656 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 320372015657 trimer interface [polypeptide binding]; other site 320372015658 active site 320372015659 substrate binding site [chemical binding]; other site 320372015660 CoA binding site [chemical binding]; other site 320372015661 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 320372015662 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 320372015663 active site 320372015664 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 320372015665 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372015666 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372015667 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 320372015668 putative effector binding pocket; other site 320372015669 dimerization interface [polypeptide binding]; other site 320372015670 Pirin-related protein [General function prediction only]; Region: COG1741 320372015671 Pirin; Region: Pirin; pfam02678 320372015672 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 320372015673 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 320372015674 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 320372015675 ligand binding site [chemical binding]; other site 320372015676 flexible hinge region; other site 320372015677 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 320372015678 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372015679 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372015680 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372015681 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372015682 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372015683 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 320372015684 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372015685 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 320372015686 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372015687 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372015688 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 320372015689 putative effector binding pocket; other site 320372015690 dimerization interface [polypeptide binding]; other site 320372015691 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 320372015692 Isochorismatase family; Region: Isochorismatase; pfam00857 320372015693 catalytic triad [active] 320372015694 dimer interface [polypeptide binding]; other site 320372015695 conserved cis-peptide bond; other site 320372015696 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 320372015697 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 320372015698 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 320372015699 active site 320372015700 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 320372015701 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 320372015702 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 320372015703 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 320372015704 The 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 320372015705 The 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 320372015706 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 320372015707 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 320372015708 NAD binding site [chemical binding]; other site 320372015709 active site 320372015710 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 320372015711 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 320372015712 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372015713 DNA-binding site [nucleotide binding]; DNA binding site 320372015714 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 320372015715 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372015716 homodimer interface [polypeptide binding]; other site 320372015717 catalytic residue [active] 320372015718 Putative amidotransferase; Region: DUF4066; pfam13278 320372015719 conserved cys residue [active] 320372015720 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 320372015721 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 320372015722 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 320372015723 hypothetical protein; Provisional; Region: PRK08609 320372015724 active site 320372015725 primer binding site [nucleotide binding]; other site 320372015726 NTP binding site [chemical binding]; other site 320372015727 metal binding triad [ion binding]; metal-binding site 320372015728 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 320372015729 active site 320372015730 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 320372015731 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 320372015732 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 320372015733 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 320372015734 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 320372015735 CopC domain; Region: CopC; pfam04234 320372015736 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 320372015737 HAMP domain; Region: HAMP; pfam00672 320372015738 dimerization interface [polypeptide binding]; other site 320372015739 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 320372015740 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372015741 dimer interface [polypeptide binding]; other site 320372015742 putative CheW interface [polypeptide binding]; other site 320372015743 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 320372015744 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 320372015745 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 320372015746 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 320372015747 Protein of unknown function (DUF3138); Region: DUF3138; pfam11336 320372015748 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 320372015749 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 320372015750 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372015751 dimer interface [polypeptide binding]; other site 320372015752 conserved gate region; other site 320372015753 putative PBP binding loops; other site 320372015754 ABC-ATPase subunit interface; other site 320372015755 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372015756 dimer interface [polypeptide binding]; other site 320372015757 conserved gate region; other site 320372015758 putative PBP binding loops; other site 320372015759 ABC-ATPase subunit interface; other site 320372015760 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 320372015761 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372015762 Walker A/P-loop; other site 320372015763 ATP binding site [chemical binding]; other site 320372015764 Q-loop/lid; other site 320372015765 ABC transporter signature motif; other site 320372015766 Walker B; other site 320372015767 D-loop; other site 320372015768 H-loop/switch region; other site 320372015769 TOBE domain; Region: TOBE_2; pfam08402 320372015770 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 320372015771 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 320372015772 putative aminotransferase; Validated; Region: PRK07480 320372015773 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 320372015774 inhibitor-cofactor binding pocket; inhibition site 320372015775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372015776 catalytic residue [active] 320372015777 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 320372015778 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 320372015779 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 320372015780 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 320372015781 catalytic triad [active] 320372015782 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 320372015783 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 320372015784 non-specific DNA binding site [nucleotide binding]; other site 320372015785 salt bridge; other site 320372015786 sequence-specific DNA binding site [nucleotide binding]; other site 320372015787 Cupin domain; Region: Cupin_2; pfam07883 320372015788 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 320372015789 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 320372015790 NAD(P) binding site [chemical binding]; other site 320372015791 catalytic residues [active] 320372015792 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 320372015793 agmatinase; Region: agmatinase; TIGR01230 320372015794 oligomer interface [polypeptide binding]; other site 320372015795 putative active site [active] 320372015796 Mn binding site [ion binding]; other site 320372015797 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 320372015798 oligomerisation interface [polypeptide binding]; other site 320372015799 mobile loop; other site 320372015800 roof hairpin; other site 320372015801 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 320372015802 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 320372015803 ring oligomerisation interface [polypeptide binding]; other site 320372015804 ATP/Mg binding site [chemical binding]; other site 320372015805 stacking interactions; other site 320372015806 hinge regions; other site 320372015807 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 320372015808 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 320372015809 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 320372015810 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 320372015811 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 320372015812 active site 320372015813 dimer interface [polypeptide binding]; other site 320372015814 effector binding site; other site 320372015815 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372015816 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 320372015817 acyl-activating enzyme (AAE) consensus motif; other site 320372015818 AMP binding site [chemical binding]; other site 320372015819 active site 320372015820 CoA binding site [chemical binding]; other site 320372015821 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 320372015822 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 320372015823 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 320372015824 active site 320372015825 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 320372015826 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 320372015827 dimer interface [polypeptide binding]; other site 320372015828 active site 320372015829 CoA binding pocket [chemical binding]; other site 320372015830 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 320372015831 acyl-CoA synthetase; Validated; Region: PRK05850 320372015832 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 320372015833 acyl-activating enzyme (AAE) consensus motif; other site 320372015834 active site 320372015835 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 320372015836 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 320372015837 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 320372015838 active site 320372015839 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 320372015840 MAPEG family; Region: MAPEG; cl09190 320372015841 Integrase core domain; Region: rve_3; pfam13683 320372015842 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 320372015843 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 320372015844 catalytic residue [active] 320372015845 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 320372015846 catalytic residues [active] 320372015847 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 320372015848 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 320372015849 peroxiredoxin; Region: AhpC; TIGR03137 320372015850 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 320372015851 dimer interface [polypeptide binding]; other site 320372015852 decamer (pentamer of dimers) interface [polypeptide binding]; other site 320372015853 catalytic triad [active] 320372015854 peroxidatic and resolving cysteines [active] 320372015855 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 320372015856 Chitin binding domain; Region: Chitin_bind_3; pfam03067 320372015857 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 320372015858 putative FMN binding site [chemical binding]; other site 320372015859 Uncharacterized conserved protein [Function unknown]; Region: COG2308 320372015860 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 320372015861 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 320372015862 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 320372015863 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 320372015864 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 320372015865 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 320372015866 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 320372015867 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 320372015868 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 320372015869 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 320372015870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 320372015871 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 320372015872 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 320372015873 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 320372015874 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 320372015875 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372015876 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 320372015877 DNA-binding site [nucleotide binding]; DNA binding site 320372015878 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 320372015879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372015880 homodimer interface [polypeptide binding]; other site 320372015881 catalytic residue [active] 320372015882 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 320372015883 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372015884 putative substrate translocation pore; other site 320372015885 Predicted membrane protein [Function unknown]; Region: COG1289 320372015886 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 320372015887 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 320372015888 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 320372015889 conserved cys residue [active] 320372015890 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 320372015891 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 320372015892 conserved cys residue [active] 320372015893 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372015894 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 320372015895 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372015896 catalytic residue [active] 320372015897 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 320372015898 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 320372015899 PYR/PP interface [polypeptide binding]; other site 320372015900 dimer interface [polypeptide binding]; other site 320372015901 TPP binding site [chemical binding]; other site 320372015902 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 320372015903 TPP-binding site [chemical binding]; other site 320372015904 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 320372015905 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 320372015906 tetramer interface [polypeptide binding]; other site 320372015907 active site 320372015908 Mg2+/Mn2+ binding site [ion binding]; other site 320372015909 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 320372015910 active site 320372015911 metal-binding site 320372015912 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 320372015913 active site 320372015914 metal-binding site 320372015915 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 320372015916 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 320372015917 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 320372015918 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 320372015919 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 320372015920 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 320372015921 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 320372015922 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 320372015923 type VI secretion protein, VC_A0107 family; Region: VI_chp_5; TIGR03358 320372015924 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 320372015925 Protein of unknown function (DUF877); Region: DUF877; pfam05943 320372015926 Protein of unknown function (DUF796); Region: DUF796; pfam05638 320372015927 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 320372015928 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 320372015929 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 320372015930 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 320372015931 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 320372015932 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 320372015933 Walker A motif; other site 320372015934 ATP binding site [chemical binding]; other site 320372015935 Walker B motif; other site 320372015936 arginine finger; other site 320372015937 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 320372015938 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 320372015939 Walker A motif; other site 320372015940 ATP binding site [chemical binding]; other site 320372015941 Walker B motif; other site 320372015942 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 320372015943 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 320372015944 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 320372015945 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 320372015946 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 320372015947 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 320372015948 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 320372015949 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 320372015950 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 320372015951 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 320372015952 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 320372015953 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 320372015954 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 320372015955 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 320372015956 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 320372015957 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 320372015958 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 320372015959 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 320372015960 hypothetical protein; Provisional; Region: PRK14693 320372015961 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 320372015962 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 320372015963 ligand binding site [chemical binding]; other site 320372015964 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 320372015965 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 320372015966 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 320372015967 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 320372015968 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 320372015969 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 320372015970 active site 320372015971 TDP-binding site; other site 320372015972 acceptor substrate-binding pocket; other site 320372015973 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 320372015974 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372015975 putative substrate translocation pore; other site 320372015976 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372015977 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 320372015978 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 320372015979 Ligand binding site; other site 320372015980 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 320372015981 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 320372015982 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372015983 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372015984 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 320372015985 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 320372015986 substrate binding [chemical binding]; other site 320372015987 active site 320372015988 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 320372015989 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 320372015990 active site 320372015991 Transcriptional regulators [Transcription]; Region: PurR; COG1609 320372015992 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 320372015993 DNA binding site [nucleotide binding] 320372015994 domain linker motif; other site 320372015995 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 320372015996 ligand binding site [chemical binding]; other site 320372015997 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 320372015998 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 320372015999 NAD binding site [chemical binding]; other site 320372016000 catalytic Zn binding site [ion binding]; other site 320372016001 structural Zn binding site [ion binding]; other site 320372016002 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 320372016003 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 320372016004 conserved cys residue [active] 320372016005 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372016006 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 320372016007 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 320372016008 dimer interface [polypeptide binding]; other site 320372016009 active site 320372016010 glycine-pyridoxal phosphate binding site [chemical binding]; other site 320372016011 folate binding site [chemical binding]; other site 320372016012 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 320372016013 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 320372016014 active site 320372016015 dimer interface [polypeptide binding]; other site 320372016016 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 320372016017 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 320372016018 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 320372016019 putative active site [active] 320372016020 putative FMN binding site [chemical binding]; other site 320372016021 putative substrate binding site [chemical binding]; other site 320372016022 putative catalytic residue [active] 320372016023 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 320372016024 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 320372016025 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 320372016026 Cysteine-rich domain; Region: CCG; pfam02754 320372016027 Cysteine-rich domain; Region: CCG; pfam02754 320372016028 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 320372016029 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 320372016030 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 320372016031 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 320372016032 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 320372016033 [2Fe-2S] cluster binding site [ion binding]; other site 320372016034 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 320372016035 putative alpha subunit interface [polypeptide binding]; other site 320372016036 putative active site [active] 320372016037 putative substrate binding site [chemical binding]; other site 320372016038 Fe binding site [ion binding]; other site 320372016039 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 320372016040 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 320372016041 FAD binding pocket [chemical binding]; other site 320372016042 FAD binding motif [chemical binding]; other site 320372016043 phosphate binding motif [ion binding]; other site 320372016044 beta-alpha-beta structure motif; other site 320372016045 NAD binding pocket [chemical binding]; other site 320372016046 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 320372016047 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 320372016048 catalytic loop [active] 320372016049 iron binding site [ion binding]; other site 320372016050 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 320372016051 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 320372016052 Amino acid permease; Region: AA_permease_2; pfam13520 320372016053 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 320372016054 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 320372016055 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 320372016056 putative active site [active] 320372016057 putative substrate binding site [chemical binding]; other site 320372016058 putative cosubstrate binding site; other site 320372016059 catalytic site [active] 320372016060 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 320372016061 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372016062 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 320372016063 substrate binding pocket [chemical binding]; other site 320372016064 dimerization interface [polypeptide binding]; other site 320372016065 choline-sulfatase; Region: chol_sulfatase; TIGR03417 320372016066 Sulfatase; Region: Sulfatase; cl17466 320372016067 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 320372016068 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 320372016069 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 320372016070 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372016071 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 320372016072 trimer interface [polypeptide binding]; other site 320372016073 eyelet of channel; other site 320372016074 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase; Region: M28_AAP; cd03879 320372016075 Peptidase family M28; Region: Peptidase_M28; pfam04389 320372016076 active site 320372016077 metal binding site [ion binding]; metal-binding site 320372016078 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 320372016079 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 320372016080 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 320372016081 Zn binding site [ion binding]; other site 320372016082 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 320372016083 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 320372016084 conserved cys residue [active] 320372016085 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372016086 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 320372016087 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 320372016088 Uncharacterized conserved protein [Function unknown]; Region: COG3246 320372016089 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 320372016090 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 320372016091 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 320372016092 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 320372016093 active site 320372016094 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 320372016095 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 320372016096 short chain dehydrogenase; Provisional; Region: PRK06197 320372016097 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 320372016098 putative NAD(P) binding site [chemical binding]; other site 320372016099 active site 320372016100 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 320372016101 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 320372016102 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 320372016103 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 320372016104 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 320372016105 dimerization interface [polypeptide binding]; other site 320372016106 ligand binding site [chemical binding]; other site 320372016107 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 320372016108 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 320372016109 TM-ABC transporter signature motif; other site 320372016110 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 320372016111 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 320372016112 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 320372016113 TM-ABC transporter signature motif; other site 320372016114 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 320372016115 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 320372016116 Walker A/P-loop; other site 320372016117 ATP binding site [chemical binding]; other site 320372016118 Q-loop/lid; other site 320372016119 ABC transporter signature motif; other site 320372016120 Walker B; other site 320372016121 D-loop; other site 320372016122 H-loop/switch region; other site 320372016123 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 320372016124 Peptidase family M23; Region: Peptidase_M23; pfam01551 320372016125 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 320372016126 salicylate biosynthesis isochorismate synthase; Validated; Region: PRK07054 320372016127 chorismate binding enzyme; Region: Chorismate_bind; cl10555 320372016128 isochorismate-pyruvate lyase; Reviewed; Region: PRK07075 320372016129 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 320372016130 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 320372016131 nucleophilic elbow; other site 320372016132 catalytic triad; other site 320372016133 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 320372016134 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 320372016135 acyl-activating enzyme (AAE) consensus motif; other site 320372016136 active site 320372016137 AMP binding site [chemical binding]; other site 320372016138 substrate binding site [chemical binding]; other site 320372016139 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 320372016140 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372016141 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 320372016142 Condensation domain; Region: Condensation; pfam00668 320372016143 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372016144 Nonribosomal peptide synthase; Region: NRPS; pfam08415 320372016145 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 320372016146 acyl-activating enzyme (AAE) consensus motif; other site 320372016147 AMP binding site [chemical binding]; other site 320372016148 Methyltransferase domain; Region: Methyltransf_12; pfam08242 320372016149 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372016150 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372016151 Condensation domain; Region: Condensation; pfam00668 320372016152 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 320372016153 Nonribosomal peptide synthase; Region: NRPS; pfam08415 320372016154 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 320372016155 acyl-activating enzyme (AAE) consensus motif; other site 320372016156 AMP binding site [chemical binding]; other site 320372016157 Methyltransferase domain; Region: Methyltransf_12; pfam08242 320372016158 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 320372016159 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 320372016160 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 320372016161 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372016162 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 320372016163 Walker A/P-loop; other site 320372016164 ATP binding site [chemical binding]; other site 320372016165 Q-loop/lid; other site 320372016166 ABC transporter signature motif; other site 320372016167 Walker B; other site 320372016168 D-loop; other site 320372016169 H-loop/switch region; other site 320372016170 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 320372016171 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 320372016172 Walker A/P-loop; other site 320372016173 ATP binding site [chemical binding]; other site 320372016174 Q-loop/lid; other site 320372016175 ABC transporter signature motif; other site 320372016176 Walker B; other site 320372016177 D-loop; other site 320372016178 H-loop/switch region; other site 320372016179 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 320372016180 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 320372016181 N-terminal plug; other site 320372016182 ligand-binding site [chemical binding]; other site 320372016183 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 320372016184 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 320372016185 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 320372016186 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 320372016187 catalytic loop [active] 320372016188 iron binding site [ion binding]; other site 320372016189 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 320372016190 GAF domain; Region: GAF; pfam01590 320372016191 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 320372016192 Walker A motif; other site 320372016193 ATP binding site [chemical binding]; other site 320372016194 Walker B motif; other site 320372016195 arginine finger; other site 320372016196 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 320372016197 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 320372016198 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 320372016199 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 320372016200 TIGR02594 family protein; Region: TIGR02594 320372016201 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 320372016202 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 320372016203 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372016204 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 320372016205 dimerization interface [polypeptide binding]; other site 320372016206 substrate binding pocket [chemical binding]; other site 320372016207 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 320372016208 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 320372016209 NAD(P) binding site [chemical binding]; other site 320372016210 catalytic residues [active] 320372016211 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 320372016212 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 320372016213 active site 320372016214 iron coordination sites [ion binding]; other site 320372016215 substrate binding pocket [chemical binding]; other site 320372016216 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 320372016217 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 320372016218 PYR/PP interface [polypeptide binding]; other site 320372016219 dimer interface [polypeptide binding]; other site 320372016220 TPP binding site [chemical binding]; other site 320372016221 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 320372016222 TPP-binding site; other site 320372016223 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 320372016224 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 320372016225 short chain dehydrogenase; Validated; Region: PRK05855 320372016226 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 320372016227 classical (c) SDRs; Region: SDR_c; cd05233 320372016228 NAD(P) binding site [chemical binding]; other site 320372016229 active site 320372016230 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 320372016231 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 320372016232 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 320372016233 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 320372016234 active site 320372016235 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 320372016236 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 320372016237 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372016238 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372016239 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 320372016240 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 320372016241 active site 320372016242 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 320372016243 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 320372016244 tetrameric interface [polypeptide binding]; other site 320372016245 NAD binding site [chemical binding]; other site 320372016246 catalytic residues [active] 320372016247 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 320372016248 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 320372016249 active site 320372016250 acyl-activating enzyme (AAE) consensus motif; other site 320372016251 putative CoA binding site [chemical binding]; other site 320372016252 AMP binding site [chemical binding]; other site 320372016253 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 320372016254 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 320372016255 enoyl-CoA hydratase; Provisional; Region: PRK09076 320372016256 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 320372016257 substrate binding site [chemical binding]; other site 320372016258 oxyanion hole (OAH) forming residues; other site 320372016259 trimer interface [polypeptide binding]; other site 320372016260 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 320372016261 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 320372016262 substrate binding site [chemical binding]; other site 320372016263 oxyanion hole (OAH) forming residues; other site 320372016264 trimer interface [polypeptide binding]; other site 320372016265 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 320372016266 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 320372016267 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 320372016268 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 320372016269 Walker A/P-loop; other site 320372016270 ATP binding site [chemical binding]; other site 320372016271 Q-loop/lid; other site 320372016272 ABC transporter signature motif; other site 320372016273 Walker B; other site 320372016274 D-loop; other site 320372016275 H-loop/switch region; other site 320372016276 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 320372016277 FtsX-like permease family; Region: FtsX; pfam02687 320372016278 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 320372016279 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 320372016280 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372016281 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 320372016282 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 320372016283 active site 320372016284 dimer interface [polypeptide binding]; other site 320372016285 non-prolyl cis peptide bond; other site 320372016286 insertion regions; other site 320372016287 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 320372016288 B1 nucleotide binding pocket [chemical binding]; other site 320372016289 B2 nucleotide binding pocket [chemical binding]; other site 320372016290 CAS motifs; other site 320372016291 active site 320372016292 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 320372016293 glutaminase; Provisional; Region: PRK00971 320372016294 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 320372016295 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372016296 active site 320372016297 phosphorylation site [posttranslational modification] 320372016298 intermolecular recognition site; other site 320372016299 dimerization interface [polypeptide binding]; other site 320372016300 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 320372016301 DNA binding site [nucleotide binding] 320372016302 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 320372016303 dimer interface [polypeptide binding]; other site 320372016304 phosphorylation site [posttranslational modification] 320372016305 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372016306 ATP binding site [chemical binding]; other site 320372016307 Mg2+ binding site [ion binding]; other site 320372016308 G-X-G motif; other site 320372016309 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 320372016310 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 320372016311 active site 320372016312 nucleophile elbow; other site 320372016313 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 320372016314 Surface antigen; Region: Bac_surface_Ag; pfam01103 320372016315 rod shape-determining protein MreB; Provisional; Region: PRK13930 320372016316 MreB and similar proteins; Region: MreB_like; cd10225 320372016317 nucleotide binding site [chemical binding]; other site 320372016318 Mg binding site [ion binding]; other site 320372016319 putative protofilament interaction site [polypeptide binding]; other site 320372016320 RodZ interaction site [polypeptide binding]; other site 320372016321 Cytochrome c; Region: Cytochrom_C; cl11414 320372016322 HD domain; Region: HD_3; pfam13023 320372016323 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 320372016324 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 320372016325 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 320372016326 substrate binding pocket [chemical binding]; other site 320372016327 aspartate-rich region 1; other site 320372016328 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 320372016329 putative dimer interface [polypeptide binding]; other site 320372016330 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 320372016331 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 320372016332 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 320372016333 C-terminal domain interface [polypeptide binding]; other site 320372016334 GSH binding site (G-site) [chemical binding]; other site 320372016335 dimer interface [polypeptide binding]; other site 320372016336 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 320372016337 N-terminal domain interface [polypeptide binding]; other site 320372016338 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 320372016339 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 320372016340 dimer interface [polypeptide binding]; other site 320372016341 phosphorylation site [posttranslational modification] 320372016342 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372016343 ATP binding site [chemical binding]; other site 320372016344 Mg2+ binding site [ion binding]; other site 320372016345 G-X-G motif; other site 320372016346 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 320372016347 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372016348 active site 320372016349 phosphorylation site [posttranslational modification] 320372016350 intermolecular recognition site; other site 320372016351 dimerization interface [polypeptide binding]; other site 320372016352 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 320372016353 DNA binding site [nucleotide binding] 320372016354 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 320372016355 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 320372016356 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 320372016357 putative active site [active] 320372016358 Uncharacterized small protein (DUF2158); Region: DUF2158; pfam09926 320372016359 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 320372016360 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 320372016361 active site residue [active] 320372016362 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 320372016363 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 320372016364 conserved cys residue [active] 320372016365 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372016366 hypothetical protein; Provisional; Region: PRK07907 320372016367 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 320372016368 metal binding site [ion binding]; metal-binding site 320372016369 putative dimer interface [polypeptide binding]; other site 320372016370 TfoX N-terminal domain; Region: TfoX_N; pfam04993 320372016371 NnrU protein; Region: NnrU; pfam07298 320372016372 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 320372016373 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 320372016374 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 320372016375 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 320372016376 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 320372016377 Integrase core domain; Region: rve_3; pfam13683 320372016378 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 320372016379 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 320372016380 active site 320372016381 intermolecular recognition site; other site 320372016382 dimerization interface [polypeptide binding]; other site 320372016383 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 320372016384 DNA binding site [nucleotide binding] 320372016385 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 320372016386 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 320372016387 active site 320372016388 iron coordination sites [ion binding]; other site 320372016389 substrate binding pocket [chemical binding]; other site 320372016390 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 320372016391 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 320372016392 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 320372016393 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 320372016394 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 320372016395 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372016396 putative substrate translocation pore; other site 320372016397 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372016398 Trehalase; Region: Trehalase; cl17346 320372016399 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 320372016400 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 320372016401 Subunit I/III interface [polypeptide binding]; other site 320372016402 Autoinducer binding domain; Region: Autoind_bind; pfam03472 320372016403 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 320372016404 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 320372016405 DNA binding residues [nucleotide binding] 320372016406 dimerization interface [polypeptide binding]; other site 320372016407 Autoinducer binding domain; Region: Autoind_bind; pfam03472 320372016408 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 320372016409 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 320372016410 active site 320372016411 dimer interface [polypeptide binding]; other site 320372016412 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 320372016413 Ligand Binding Site [chemical binding]; other site 320372016414 Molecular Tunnel; other site 320372016415 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 320372016416 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 320372016417 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 320372016418 DNA binding site [nucleotide binding] 320372016419 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 320372016420 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 320372016421 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 320372016422 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 320372016423 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 320372016424 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 320372016425 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 320372016426 catalytic loop [active] 320372016427 iron binding site [ion binding]; other site 320372016428 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 320372016429 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 320372016430 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 320372016431 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372016432 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372016433 SnoaL-like domain; Region: SnoaL_2; pfam12680 320372016434 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 320372016435 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 320372016436 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 320372016437 Flavin binding site [chemical binding]; other site 320372016438 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 320372016439 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 320372016440 active site 320372016441 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 320372016442 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 320372016443 active site 320372016444 non-prolyl cis peptide bond; other site 320372016445 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 320372016446 dimerization interface [polypeptide binding]; other site 320372016447 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 320372016448 dimer interface [polypeptide binding]; other site 320372016449 phosphorylation site [posttranslational modification] 320372016450 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372016451 ATP binding site [chemical binding]; other site 320372016452 Mg2+ binding site [ion binding]; other site 320372016453 G-X-G motif; other site 320372016454 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 320372016455 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372016456 active site 320372016457 phosphorylation site [posttranslational modification] 320372016458 intermolecular recognition site; other site 320372016459 dimerization interface [polypeptide binding]; other site 320372016460 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 320372016461 DNA binding site [nucleotide binding] 320372016462 MltA-interacting protein MipA; Region: MipA; cl01504 320372016463 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 320372016464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372016465 NAD(P) binding site [chemical binding]; other site 320372016466 active site 320372016467 MarR family; Region: MarR_2; cl17246 320372016468 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 320372016469 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 320372016470 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 320372016471 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 320372016472 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 320372016473 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 320372016474 NAD binding site [chemical binding]; other site 320372016475 catalytic residues [active] 320372016476 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 320372016477 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 320372016478 putative active site [active] 320372016479 putative metal binding site [ion binding]; other site 320372016480 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 320372016481 putative substrate binding pocket [chemical binding]; other site 320372016482 trimer interface [polypeptide binding]; other site 320372016483 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 320372016484 Helix-turn-helix domain; Region: HTH_18; pfam12833 320372016485 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372016486 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 320372016487 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 320372016488 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 320372016489 NAD(P) binding site [chemical binding]; other site 320372016490 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372016491 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 320372016492 trimer interface [polypeptide binding]; other site 320372016493 eyelet of channel; other site 320372016494 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 320372016495 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 320372016496 Walker A/P-loop; other site 320372016497 ATP binding site [chemical binding]; other site 320372016498 Q-loop/lid; other site 320372016499 ABC transporter signature motif; other site 320372016500 Walker B; other site 320372016501 D-loop; other site 320372016502 H-loop/switch region; other site 320372016503 TOBE domain; Region: TOBE_2; pfam08402 320372016504 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 320372016505 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372016506 dimer interface [polypeptide binding]; other site 320372016507 conserved gate region; other site 320372016508 ABC-ATPase subunit interface; other site 320372016509 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372016510 dimer interface [polypeptide binding]; other site 320372016511 conserved gate region; other site 320372016512 putative PBP binding loops; other site 320372016513 ABC-ATPase subunit interface; other site 320372016514 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 320372016515 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 320372016516 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 320372016517 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372016518 active site 320372016519 phosphorylation site [posttranslational modification] 320372016520 intermolecular recognition site; other site 320372016521 dimerization interface [polypeptide binding]; other site 320372016522 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 320372016523 DNA binding site [nucleotide binding] 320372016524 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 320372016525 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 320372016526 dimer interface [polypeptide binding]; other site 320372016527 phosphorylation site [posttranslational modification] 320372016528 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372016529 ATP binding site [chemical binding]; other site 320372016530 Mg2+ binding site [ion binding]; other site 320372016531 G-X-G motif; other site 320372016532 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 320372016533 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 320372016534 MOSC domain; Region: MOSC; pfam03473 320372016535 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 320372016536 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372016537 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 320372016538 trimer interface [polypeptide binding]; other site 320372016539 eyelet of channel; other site 320372016540 enoyl-CoA hydratase; Validated; Region: PRK08139 320372016541 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 320372016542 substrate binding site [chemical binding]; other site 320372016543 oxyanion hole (OAH) forming residues; other site 320372016544 trimer interface [polypeptide binding]; other site 320372016545 alanine racemase; Reviewed; Region: PRK13340 320372016546 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 320372016547 active site 320372016548 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 320372016549 substrate binding site [chemical binding]; other site 320372016550 catalytic residues [active] 320372016551 dimer interface [polypeptide binding]; other site 320372016552 Domain of unknown function (DUF427); Region: DUF427; pfam04248 320372016553 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 320372016554 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 320372016555 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 320372016556 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 320372016557 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 320372016558 Esterase/lipase [General function prediction only]; Region: COG1647 320372016559 MASE1; Region: MASE1; pfam05231 320372016560 PAS fold; Region: PAS_3; pfam08447 320372016561 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372016562 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372016563 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 320372016564 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 320372016565 potential catalytic triad [active] 320372016566 conserved cys residue [active] 320372016567 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 320372016568 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 320372016569 active site 320372016570 FMN binding site [chemical binding]; other site 320372016571 substrate binding site [chemical binding]; other site 320372016572 homotetramer interface [polypeptide binding]; other site 320372016573 catalytic residue [active] 320372016574 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 320372016575 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 320372016576 NAD binding site [chemical binding]; other site 320372016577 homotetramer interface [polypeptide binding]; other site 320372016578 homodimer interface [polypeptide binding]; other site 320372016579 substrate binding site [chemical binding]; other site 320372016580 active site 320372016581 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 320372016582 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 320372016583 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 320372016584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372016585 NAD(P) binding site [chemical binding]; other site 320372016586 active site 320372016587 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 320372016588 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372016589 DNA-binding site [nucleotide binding]; DNA binding site 320372016590 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 320372016591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372016592 homodimer interface [polypeptide binding]; other site 320372016593 catalytic residue [active] 320372016594 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 320372016595 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 320372016596 Mg2+ binding site [ion binding]; other site 320372016597 G-X-G motif; other site 320372016598 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 320372016599 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 320372016600 ligand binding site [chemical binding]; other site 320372016601 flexible hinge region; other site 320372016602 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 320372016603 acyl-CoA synthetase; Validated; Region: PRK08162 320372016604 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 320372016605 acyl-activating enzyme (AAE) consensus motif; other site 320372016606 putative active site [active] 320372016607 AMP binding site [chemical binding]; other site 320372016608 putative CoA binding site [chemical binding]; other site 320372016609 Cache domain; Region: Cache_1; pfam02743 320372016610 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372016611 dimer interface [polypeptide binding]; other site 320372016612 putative CheW interface [polypeptide binding]; other site 320372016613 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 320372016614 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 320372016615 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 320372016616 DXD motif; other site 320372016617 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 320372016618 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372016619 HlyD family secretion protein; Region: HlyD_3; pfam13437 320372016620 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 320372016621 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372016622 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372016623 The 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 320372016624 dimerization interface [polypeptide binding]; other site 320372016625 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 320372016626 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 320372016627 inhibitor-cofactor binding pocket; inhibition site 320372016628 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372016629 catalytic residue [active] 320372016630 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 320372016631 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 320372016632 tetrameric interface [polypeptide binding]; other site 320372016633 NAD binding site [chemical binding]; other site 320372016634 catalytic residues [active] 320372016635 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 320372016636 Secretory lipase; Region: LIP; pfam03583 320372016637 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 320372016638 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372016639 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 320372016640 trimer interface [polypeptide binding]; other site 320372016641 eyelet of channel; other site 320372016642 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 320372016643 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 320372016644 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 320372016645 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 320372016646 DNA binding residues [nucleotide binding] 320372016647 dimerization interface [polypeptide binding]; other site 320372016648 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 320372016649 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 320372016650 homodimer interface [polypeptide binding]; other site 320372016651 homotetramer interface [polypeptide binding]; other site 320372016652 active site pocket [active] 320372016653 cleavage site 320372016654 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; cl11399 320372016655 Fusaric acid resistance protein family; Region: FUSC; pfam04632 320372016656 transcriptional regulator; Provisional; Region: PRK10632 320372016657 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372016658 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 320372016659 putative effector binding pocket; other site 320372016660 dimerization interface [polypeptide binding]; other site 320372016661 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 320372016662 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372016663 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 320372016664 trimer interface [polypeptide binding]; other site 320372016665 eyelet of channel; other site 320372016666 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 320372016667 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 320372016668 cytosine permease; Provisional; Region: codB; PRK11017 320372016669 Na binding site [ion binding]; other site 320372016670 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 320372016671 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 320372016672 cytosine deaminase; Provisional; Region: PRK09230 320372016673 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 320372016674 active site 320372016675 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372016676 putative substrate translocation pore; other site 320372016677 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 320372016678 short chain dehydrogenase; Provisional; Region: PRK12829 320372016679 classical (c) SDRs; Region: SDR_c; cd05233 320372016680 NAD(P) binding site [chemical binding]; other site 320372016681 active site 320372016682 Transcriptional regulators [Transcription]; Region: GntR; COG1802 320372016683 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 320372016684 FCD domain; Region: FCD; pfam07729 320372016685 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 320372016686 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 320372016687 putative ion selectivity filter; other site 320372016688 putative pore gating glutamate residue; other site 320372016689 H-type lectin domain; Region: H_lectin; pfam09458 320372016690 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 320372016691 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 320372016692 Phosphoesterase family; Region: Phosphoesterase; pfam04185 320372016693 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 320372016694 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 320372016695 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 320372016696 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 320372016697 active site 320372016698 phosphorylation site [posttranslational modification] 320372016699 intermolecular recognition site; other site 320372016700 dimerization interface [polypeptide binding]; other site 320372016701 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 320372016702 DNA binding residues [nucleotide binding] 320372016703 dimerization interface [polypeptide binding]; other site 320372016704 MarR family; Region: MarR_2; cl17246 320372016705 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 320372016706 The 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 320372016707 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 320372016708 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 320372016709 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 320372016710 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 320372016711 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 320372016712 Uncharacterized conserved protein [Function unknown]; Region: COG5649 320372016713 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 320372016714 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 320372016715 substrate binding site [chemical binding]; other site 320372016716 oxyanion hole (OAH) forming residues; other site 320372016717 trimer interface [polypeptide binding]; other site 320372016718 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 320372016719 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 320372016720 NAD(P) binding site [chemical binding]; other site 320372016721 catalytic residues [active] 320372016722 feruloyl-CoA synthase; Reviewed; Region: PRK08180 320372016723 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 320372016724 acyl-activating enzyme (AAE) consensus motif; other site 320372016725 putative active site [active] 320372016726 putative AMP binding site [chemical binding]; other site 320372016727 putative CoA binding site [chemical binding]; other site 320372016728 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 320372016729 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372016730 putative substrate translocation pore; other site 320372016731 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372016732 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 320372016733 trimer interface [polypeptide binding]; other site 320372016734 eyelet of channel; other site 320372016735 Tannase and feruloyl esterase; Region: Tannase; pfam07519 320372016736 Transcriptional regulator [Transcription]; Region: IclR; COG1414 320372016737 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 320372016738 Bacterial transcriptional regulator; Region: IclR; pfam01614 320372016739 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 320372016740 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 320372016741 ligand binding site [chemical binding]; other site 320372016742 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 320372016743 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 320372016744 Walker A/P-loop; other site 320372016745 ATP binding site [chemical binding]; other site 320372016746 Q-loop/lid; other site 320372016747 ABC transporter signature motif; other site 320372016748 Walker B; other site 320372016749 D-loop; other site 320372016750 H-loop/switch region; other site 320372016751 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 320372016752 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 320372016753 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 320372016754 TM-ABC transporter signature motif; other site 320372016755 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 320372016756 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 320372016757 Amidohydrolase; Region: Amidohydro_2; pfam04909 320372016758 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 320372016759 active site 320372016760 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 320372016761 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 320372016762 NAD binding site [chemical binding]; other site 320372016763 homotetramer interface [polypeptide binding]; other site 320372016764 homodimer interface [polypeptide binding]; other site 320372016765 active site 320372016766 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 320372016767 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 320372016768 short chain dehydrogenase; Provisional; Region: PRK08628 320372016769 classical (c) SDRs; Region: SDR_c; cd05233 320372016770 NAD(P) binding site [chemical binding]; other site 320372016771 active site 320372016772 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 320372016773 YadA-like C-terminal region; Region: YadA; pfam03895 320372016774 H-NS histone family; Region: Histone_HNS; pfam00816 320372016775 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 320372016776 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 320372016777 Transcriptional regulator [Transcription]; Region: IclR; COG1414 320372016778 Bacterial transcriptional regulator; Region: IclR; pfam01614 320372016779 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 320372016780 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 320372016781 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 320372016782 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 320372016783 CoenzymeA binding site [chemical binding]; other site 320372016784 subunit interaction site [polypeptide binding]; other site 320372016785 PHB binding site; other site 320372016786 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 320372016787 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 320372016788 dimerization interface [polypeptide binding]; other site 320372016789 ligand binding site [chemical binding]; other site 320372016790 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 320372016791 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 320372016792 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 320372016793 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 320372016794 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 320372016795 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 320372016796 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 320372016797 metal binding site [ion binding]; metal-binding site 320372016798 active site 320372016799 I-site; other site 320372016800 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 320372016801 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 320372016802 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 320372016803 AsnC family; Region: AsnC_trans_reg; pfam01037 320372016804 aromatic amino acid transporter; Provisional; Region: PRK10238 320372016805 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 320372016806 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 320372016807 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372016808 homodimer interface [polypeptide binding]; other site 320372016809 catalytic residue [active] 320372016810 Protein of unknown function, DUF488; Region: DUF488; cl01246 320372016811 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 320372016812 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 320372016813 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 320372016814 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 320372016815 PAS fold; Region: PAS; pfam00989 320372016816 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 320372016817 putative active site [active] 320372016818 heme pocket [chemical binding]; other site 320372016819 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372016820 ATP binding site [chemical binding]; other site 320372016821 G-X-G motif; other site 320372016822 Response regulator receiver domain; Region: Response_reg; pfam00072 320372016823 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372016824 active site 320372016825 phosphorylation site [posttranslational modification] 320372016826 intermolecular recognition site; other site 320372016827 dimerization interface [polypeptide binding]; other site 320372016828 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 320372016829 Transglycosylase; Region: Transgly; pfam00912 320372016830 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 320372016831 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 320372016832 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 320372016833 MG2 domain; Region: A2M_N; pfam01835 320372016834 Alpha-2-macroglobulin family; Region: A2M; pfam00207 320372016835 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 320372016836 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 320372016837 putative active site pocket [active] 320372016838 dimerization interface [polypeptide binding]; other site 320372016839 putative catalytic residue [active] 320372016840 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 320372016841 active site 320372016842 HIGH motif; other site 320372016843 nucleotide binding site [chemical binding]; other site 320372016844 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 320372016845 active site 320372016846 KMSKS motif; other site 320372016847 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 320372016848 tRNA binding surface [nucleotide binding]; other site 320372016849 anticodon binding site; other site 320372016850 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 320372016851 S-adenosylmethionine binding site [chemical binding]; other site 320372016852 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 320372016853 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 320372016854 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 320372016855 substrate binding pocket [chemical binding]; other site 320372016856 active site 320372016857 iron coordination sites [ion binding]; other site 320372016858 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 320372016859 S-adenosylmethionine binding site [chemical binding]; other site 320372016860 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 320372016861 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 320372016862 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372016863 catalytic residue [active] 320372016864 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 320372016865 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 320372016866 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 320372016867 putative monooxygenase; Reviewed; Region: PRK07045 320372016868 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 320372016869 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 320372016870 sequence-specific DNA binding site [nucleotide binding]; other site 320372016871 salt bridge; other site 320372016872 Cupin domain; Region: Cupin_2; pfam07883 320372016873 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 320372016874 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 320372016875 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 320372016876 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372016877 active site 320372016878 phosphorylation site [posttranslational modification] 320372016879 intermolecular recognition site; other site 320372016880 dimerization interface [polypeptide binding]; other site 320372016881 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 320372016882 DNA binding residues [nucleotide binding] 320372016883 dimerization interface [polypeptide binding]; other site 320372016884 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 320372016885 Ligand Binding Site [chemical binding]; other site 320372016886 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 320372016887 Ligand Binding Site [chemical binding]; other site 320372016888 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 320372016889 Ligand Binding Site [chemical binding]; other site 320372016890 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 320372016891 Ligand Binding Site [chemical binding]; other site 320372016892 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 320372016893 Ligand Binding Site [chemical binding]; other site 320372016894 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 320372016895 Ligand Binding Site [chemical binding]; other site 320372016896 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 320372016897 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 320372016898 catalytic Zn binding site [ion binding]; other site 320372016899 structural Zn binding site [ion binding]; other site 320372016900 NAD(P) binding site [chemical binding]; other site 320372016901 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 320372016902 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 320372016903 active site residue [active] 320372016904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372016905 NAD(P) binding site [chemical binding]; other site 320372016906 active site 320372016907 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 320372016908 Spore germination protein; Region: Spore_permease; cl17796 320372016909 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 320372016910 sequence-specific DNA binding site [nucleotide binding]; other site 320372016911 salt bridge; other site 320372016912 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 320372016913 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 320372016914 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 320372016915 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 320372016916 Flavin binding site [chemical binding]; other site 320372016917 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 320372016918 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 320372016919 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 320372016920 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 320372016921 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 320372016922 active site 320372016923 non-prolyl cis peptide bond; other site 320372016924 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 320372016925 active site 320372016926 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 320372016927 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 320372016928 substrate binding site [chemical binding]; other site 320372016929 dimer interface [polypeptide binding]; other site 320372016930 ATP binding site [chemical binding]; other site 320372016931 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 320372016932 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 320372016933 DEAD_2; Region: DEAD_2; pfam06733 320372016934 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 320372016935 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 320372016936 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 320372016937 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 320372016938 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 320372016939 metal binding site [ion binding]; metal-binding site 320372016940 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 320372016941 flagellar capping protein; Reviewed; Region: fliD; PRK08032 320372016942 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 320372016943 transcriptional regulator; Provisional; Region: PRK10632 320372016944 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372016945 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 320372016946 putative effector binding pocket; other site 320372016947 dimerization interface [polypeptide binding]; other site 320372016948 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 320372016949 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 320372016950 catalytic residues [active] 320372016951 The 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 320372016952 dimerization interface [polypeptide binding]; other site 320372016953 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 320372016954 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 320372016955 active site 320372016956 catalytic tetrad [active] 320372016957 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 320372016958 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 320372016959 classical (c) SDRs; Region: SDR_c; cd05233 320372016960 NAD(P) binding site [chemical binding]; other site 320372016961 active site 320372016962 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 320372016963 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 320372016964 DNA binding residues [nucleotide binding] 320372016965 dimerization interface [polypeptide binding]; other site 320372016966 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 320372016967 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 320372016968 NAD(P) binding site [chemical binding]; other site 320372016969 catalytic residues [active] 320372016970 hypothetical protein; Provisional; Region: PRK07481 320372016971 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 320372016972 inhibitor-cofactor binding pocket; inhibition site 320372016973 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372016974 catalytic residue [active] 320372016975 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 320372016976 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 320372016977 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372016978 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 320372016979 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 320372016980 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372016981 eyelet of channel; other site 320372016982 trimer interface [polypeptide binding]; other site 320372016983 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 320372016984 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 320372016985 Coenzyme A binding pocket [chemical binding]; other site 320372016986 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 320372016987 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 320372016988 FMN binding site [chemical binding]; other site 320372016989 active site 320372016990 substrate binding site [chemical binding]; other site 320372016991 catalytic residue [active] 320372016992 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 320372016993 putative DNA binding site [nucleotide binding]; other site 320372016994 dimerization interface [polypeptide binding]; other site 320372016995 putative Zn2+ binding site [ion binding]; other site 320372016996 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372016997 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 320372016998 trimer interface [polypeptide binding]; other site 320372016999 eyelet of channel; other site 320372017000 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 320372017001 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 320372017002 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 320372017003 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 320372017004 FOG: CBS domain [General function prediction only]; Region: COG0517 320372017005 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 320372017006 dimerization interface [polypeptide binding]; other site 320372017007 active site 320372017008 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 320372017009 NADH/NADPH cofactor binding site [chemical binding]; other site 320372017010 Autoinducer synthetase; Region: Autoind_synth; cl17404 320372017011 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 320372017012 Autoinducer binding domain; Region: Autoind_bind; pfam03472 320372017013 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 320372017014 DNA binding residues [nucleotide binding] 320372017015 dimerization interface [polypeptide binding]; other site 320372017016 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 320372017017 MgtC family; Region: MgtC; pfam02308 320372017018 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 320372017019 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 320372017020 putative active site [active] 320372017021 putative metal binding site [ion binding]; other site 320372017022 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 320372017023 putative FMN binding site [chemical binding]; other site 320372017024 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 320372017025 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 320372017026 Transcriptional regulator [Transcription]; Region: IclR; COG1414 320372017027 Bacterial transcriptional regulator; Region: IclR; pfam01614 320372017028 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372017029 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 320372017030 trimer interface [polypeptide binding]; other site 320372017031 eyelet of channel; other site 320372017032 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 320372017033 [2Fe-2S] cluster binding site [ion binding]; other site 320372017034 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 320372017035 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 320372017036 [2Fe-2S] cluster binding site [ion binding]; other site 320372017037 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 320372017038 hydrophobic ligand binding site; other site 320372017039 short chain dehydrogenase; Provisional; Region: PRK12939 320372017040 classical (c) SDRs; Region: SDR_c; cd05233 320372017041 NAD(P) binding site [chemical binding]; other site 320372017042 active site 320372017043 Cupin domain; Region: Cupin_2; pfam07883 320372017044 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 320372017045 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 320372017046 Transcriptional regulator [Transcription]; Region: IclR; COG1414 320372017047 Bacterial transcriptional regulator; Region: IclR; pfam01614 320372017048 short chain dehydrogenase; Provisional; Region: PRK07062 320372017049 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 320372017050 putative NAD(P) binding site [chemical binding]; other site 320372017051 putative active site [active] 320372017052 hypothetical protein; Provisional; Region: PRK07064 320372017053 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 320372017054 PYR/PP interface [polypeptide binding]; other site 320372017055 dimer interface [polypeptide binding]; other site 320372017056 TPP binding site [chemical binding]; other site 320372017057 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 320372017058 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 320372017059 TPP-binding site [chemical binding]; other site 320372017060 L-aspartate dehydrogenase; Provisional; Region: PRK13303 320372017061 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 320372017062 Domain of unknown function DUF108; Region: DUF108; pfam01958 320372017063 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 320372017064 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 320372017065 NAD(P) binding site [chemical binding]; other site 320372017066 catalytic residues [active] 320372017067 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 320372017068 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 320372017069 active site 320372017070 metal binding site [ion binding]; metal-binding site 320372017071 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 320372017072 putative active site [active] 320372017073 putative metal binding site [ion binding]; other site 320372017074 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 320372017075 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 320372017076 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 320372017077 benzoate transport; Region: 2A0115; TIGR00895 320372017078 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372017079 putative substrate translocation pore; other site 320372017080 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372017081 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 320372017082 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 320372017083 trimer interface [polypeptide binding]; other site 320372017084 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 320372017085 trimer interface [polypeptide binding]; other site 320372017086 Haemagglutinin; Region: HIM; pfam05662 320372017087 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 320372017088 trimer interface [polypeptide binding]; other site 320372017089 Haemagglutinin; Region: HIM; pfam05662 320372017090 Haemagglutinin; Region: HIM; pfam05662 320372017091 YadA-like C-terminal region; Region: YadA; pfam03895 320372017092 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 320372017093 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 320372017094 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 320372017095 ligand binding site [chemical binding]; other site 320372017096 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 320372017097 Ligand Binding Site [chemical binding]; other site 320372017098 amidase; Provisional; Region: PRK07486 320372017099 Amidase; Region: Amidase; cl11426 320372017100 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 320372017101 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 320372017102 dimerization interface [polypeptide binding]; other site 320372017103 putative DNA binding site [nucleotide binding]; other site 320372017104 putative Zn2+ binding site [ion binding]; other site 320372017105 AsnC family; Region: AsnC_trans_reg; pfam01037 320372017106 methionine gamma-lyase; Validated; Region: PRK07049 320372017107 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 320372017108 homodimer interface [polypeptide binding]; other site 320372017109 substrate-cofactor binding pocket; other site 320372017110 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372017111 catalytic residue [active] 320372017112 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 320372017113 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 320372017114 Transcriptional regulator; Region: Rrf2; pfam02082 320372017115 Rrf2 family protein; Region: rrf2_super; TIGR00738 320372017116 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 320372017117 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 320372017118 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372017119 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372017120 The 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 320372017121 dimerization interface [polypeptide binding]; other site 320372017122 hypothetical protein; Provisional; Region: PRK07079 320372017123 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 320372017124 metal binding site [ion binding]; metal-binding site 320372017125 putative dimer interface [polypeptide binding]; other site 320372017126 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372017127 metabolite-proton symporter; Region: 2A0106; TIGR00883 320372017128 putative substrate translocation pore; other site 320372017129 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 320372017130 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 320372017131 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 320372017132 short chain dehydrogenase; Provisional; Region: PRK07832 320372017133 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 320372017134 NAD(P) binding site [chemical binding]; other site 320372017135 active site 320372017136 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 320372017137 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 320372017138 YhhN-like protein; Region: YhhN; pfam07947 320372017139 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 320372017140 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 320372017141 substrate binding pocket [chemical binding]; other site 320372017142 membrane-bound complex binding site; other site 320372017143 hinge residues; other site 320372017144 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 320372017145 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 320372017146 DNA binding residues [nucleotide binding] 320372017147 putative dimer interface [polypeptide binding]; other site 320372017148 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 320372017149 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 320372017150 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 320372017151 Coenzyme A binding pocket [chemical binding]; other site 320372017152 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 320372017153 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 320372017154 putative substrate translocation pore; other site 320372017155 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 320372017156 Tar ligand binding domain homologue; Region: TarH; pfam02203 320372017157 dimer interface [polypeptide binding]; other site 320372017158 ligand binding site [chemical binding]; other site 320372017159 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 320372017160 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 320372017161 dimerization interface [polypeptide binding]; other site 320372017162 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 320372017163 dimer interface [polypeptide binding]; other site 320372017164 putative CheW interface [polypeptide binding]; other site 320372017165 Family description; Region: UvrD_C_2; pfam13538 320372017166 BetR domain; Region: BetR; pfam08667 320372017167 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372017168 active site 320372017169 phosphorylation site [posttranslational modification] 320372017170 intermolecular recognition site; other site 320372017171 dimerization interface [polypeptide binding]; other site 320372017172 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 320372017173 hydroxyglutarate oxidase; Provisional; Region: PRK11728 320372017174 Ion channel; Region: Ion_trans_2; pfam07885 320372017175 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 320372017176 TrkA-N domain; Region: TrkA_N; pfam02254 320372017177 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 320372017178 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 320372017179 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 320372017180 ornithine cyclodeaminase; Validated; Region: PRK07340 320372017181 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 320372017182 Putative esterase; Region: Esterase; pfam00756 320372017183 OpgC protein; Region: OpgC_C; pfam10129 320372017184 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372017185 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 320372017186 trimer interface [polypeptide binding]; other site 320372017187 eyelet of channel; other site 320372017188 Transcriptional regulator [Transcription]; Region: LysR; COG0583 320372017189 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372017190 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 320372017191 putative dimerization interface [polypeptide binding]; other site 320372017192 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 320372017193 Peptidase family M23; Region: Peptidase_M23; pfam01551 320372017194 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 320372017195 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 320372017196 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 320372017197 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 320372017198 substrate binding pocket [chemical binding]; other site 320372017199 dimerization interface [polypeptide binding]; other site 320372017200 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 320372017201 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 320372017202 Walker A/P-loop; other site 320372017203 ATP binding site [chemical binding]; other site 320372017204 Q-loop/lid; other site 320372017205 ABC transporter signature motif; other site 320372017206 Walker B; other site 320372017207 D-loop; other site 320372017208 H-loop/switch region; other site 320372017209 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 320372017210 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 320372017211 Walker A/P-loop; other site 320372017212 ATP binding site [chemical binding]; other site 320372017213 Q-loop/lid; other site 320372017214 ABC transporter signature motif; other site 320372017215 Walker B; other site 320372017216 D-loop; other site 320372017217 H-loop/switch region; other site 320372017218 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 320372017219 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372017220 dimer interface [polypeptide binding]; other site 320372017221 conserved gate region; other site 320372017222 putative PBP binding loops; other site 320372017223 ABC-ATPase subunit interface; other site 320372017224 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 320372017225 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372017226 dimer interface [polypeptide binding]; other site 320372017227 conserved gate region; other site 320372017228 putative PBP binding loops; other site 320372017229 ABC-ATPase subunit interface; other site 320372017230 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 320372017231 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 320372017232 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 320372017233 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 320372017234 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 320372017235 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 320372017236 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 320372017237 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 320372017238 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 320372017239 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 320372017240 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 320372017241 PAAR motif; Region: PAAR_motif; pfam05488 320372017242 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 320372017243 RHS Repeat; Region: RHS_repeat; cl11982 320372017244 RHS Repeat; Region: RHS_repeat; pfam05593 320372017245 RHS Repeat; Region: RHS_repeat; cl11982 320372017246 RHS Repeat; Region: RHS_repeat; pfam05593 320372017247 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 320372017248 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 320372017249 RHS Repeat; Region: RHS_repeat; pfam05593 320372017250 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 320372017251 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 320372017252 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 320372017253 catalytic triad [active] 320372017254 putative active site [active] 320372017255 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 320372017256 Autotransporter beta-domain; Region: Autotransporter; smart00869 320372017257 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 320372017258 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 320372017259 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 320372017260 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 320372017261 Cupin; Region: Cupin_1; smart00835 320372017262 Cupin; Region: Cupin_1; smart00835 320372017263 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 320372017264 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 320372017265 Predicted membrane protein [Function unknown]; Region: COG4682 320372017266 yiaA/B two helix domain; Region: YiaAB; pfam05360 320372017267 yiaA/B two helix domain; Region: YiaAB; pfam05360 320372017268 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 320372017269 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 320372017270 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 320372017271 putative molybdopterin cofactor binding site [chemical binding]; other site 320372017272 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 320372017273 putative molybdopterin cofactor binding site; other site 320372017274 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 320372017275 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 320372017276 DNA-binding site [nucleotide binding]; DNA binding site 320372017277 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 320372017278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 320372017279 homodimer interface [polypeptide binding]; other site 320372017280 catalytic residue [active] 320372017281 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 320372017282 magnesium-transporting ATPase; Provisional; Region: PRK15122 320372017283 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 320372017284 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 320372017285 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 320372017286 Soluble P-type ATPase [General function prediction only]; Region: COG4087 320372017287 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 320372017288 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 320372017289 active site 320372017290 catalytic triad [active] 320372017291 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 320372017292 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 320372017293 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 320372017294 Cytochrome c; Region: Cytochrom_C; pfam00034 320372017295 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 320372017296 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 320372017297 Cytochrome c; Region: Cytochrom_C; pfam00034 320372017298 Predicted membrane protein [Function unknown]; Region: COG2259 320372017299 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 320372017300 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 320372017301 trimer interface [polypeptide binding]; other site 320372017302 eyelet of channel; other site 320372017303 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 320372017304 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 320372017305 dimer interface [polypeptide binding]; other site 320372017306 conserved gate region; other site 320372017307 putative PBP binding loops; other site 320372017308 ABC-ATPase subunit interface; other site 320372017309 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 320372017310 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 320372017311 Walker A/P-loop; other site 320372017312 ATP binding site [chemical binding]; other site 320372017313 Q-loop/lid; other site 320372017314 ABC transporter signature motif; other site 320372017315 Walker B; other site 320372017316 D-loop; other site 320372017317 H-loop/switch region; other site 320372017318 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 320372017319 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 320372017320 putative active site [active] 320372017321 Uncharacterized conserved protein [Function unknown]; Region: COG3791 320372017322 H+ Antiporter protein; Region: 2A0121; TIGR00900 320372017323 Histidine kinase; Region: His_kinase; pfam06580 320372017324 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 320372017325 ATP binding site [chemical binding]; other site 320372017326 Mg2+ binding site [ion binding]; other site 320372017327 G-X-G motif; other site 320372017328 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 320372017329 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 320372017330 active site 320372017331 phosphorylation site [posttranslational modification] 320372017332 intermolecular recognition site; other site 320372017333 dimerization interface [polypeptide binding]; other site 320372017334 LytTr DNA-binding domain; Region: LytTR; smart00850 320372017335 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 320372017336 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 320372017337 tetramer interface [polypeptide binding]; other site 320372017338 heme binding pocket [chemical binding]; other site 320372017339 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 320372017340 Methyltransferase domain; Region: Methyltransf_31; pfam13847 320372017341 S-adenosylmethionine binding site [chemical binding]; other site 320372017342 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 320372017343 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 320372017344 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 320372017345 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 320372017346 iron-sulfur cluster [ion binding]; other site 320372017347 [2Fe-2S] cluster binding site [ion binding]; other site 320372017348 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 320372017349 hydrophobic ligand binding site; other site 320372017350 polyketide beta-ketoacyl:acyl carrier protein synthase; Validated; Region: PRK07103 320372017351 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 320372017352 dimer interface [polypeptide binding]; other site 320372017353 active site 320372017354 acyl carrier protein; Validated; Region: PRK07117 320372017355 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 320372017356 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 320372017357 substrate binding site [chemical binding]; other site 320372017358 oxyanion hole (OAH) forming residues; other site 320372017359 trimer interface [polypeptide binding]; other site 320372017360 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 320372017361 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 320372017362 substrate binding site [chemical binding]; other site 320372017363 oxyanion hole (OAH) forming residues; other site 320372017364 trimer interface [polypeptide binding]; other site 320372017365 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 320372017366 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 320372017367 dimer interface [polypeptide binding]; other site 320372017368 active site 320372017369 Transposase; Region: DEDD_Tnp_IS110; pfam01548 320372017370 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 320372017371 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 320372017372 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 320372017373 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 320372017374 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 320372017375 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 320372017376 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 320372017377 active site 320372017378 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 320372017379 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 320372017380 KR domain; Region: KR; pfam08659 320372017381 putative NADP binding site [chemical binding]; other site 320372017382 active site 320372017383 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 320372017384 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 320372017385 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 320372017386 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 320372017387 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 320372017388 catalytic residue [active] 320372017389 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 320372017390 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 320372017391 active site 320372017392 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 320372017393 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 320372017394 active site 320372017395 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372017396 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 320372017397 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 320372017398 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 320372017399 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 320372017400 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 320372017401 active site 320372017402 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826